Citrus Sinensis ID: 024088

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270--
Protein Sequence
MTPRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAHFKLSKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVTFHNQRDFIFFRHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKLVSLQHGTFDTKGGEFEWVHKPEMDTSRRRFFL
Secondary Structure (PSIPRED)
cccccHHccccccccccccccHHHcccccccHHHHHHccccccEEEEEccccccccHHHHHHHHHHcccccEEcccccccHHHHHHHHHHccccEEEEEEEccccccEEEEEEcccccEEEEEEEcEEEcccccccccccccccEEEEccccccHHHHHHHHHHHcccccccccccEEEEEEccccEEEEEEEEEEEEcccccccccccccccccHHHHccccccccEEEEEcccEEEEEEEEccccccccccEEEEEEccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccHHccccccccccccccHHHcccccHHHHHHHHccccccEEEEEccccccHHHHHHHHHHHHHccccEEEccccccHHHHHHHHHHccccEEEEEEcccccccEEEEEEcccccEEEEEEEEEEEcccccccccccccccEEEEccccccHHHHHHHHHHHHccccccccccEEEEEEccccEEEEEEEEEEEEccccEccccccccccccccccccccccEEEEEEccccEEEEEHEEEccccccccccEEEEEccccccHHHHHcc
Coil and Loop (DISEMBL)
mtprtientrepdetvcrpdddelfagndadefssilkqgcapkilittcrfnsnrgpAFISELLsvipnshyykrgtYDLKKIIEYAKKKDFTSIIVVHTnrrepdalliiglpdgptahfKLSKLVLRKDiknhgnptghipeLVLNNFATRLGHRVGRLIqslfpqspefrgrrvvtfhnqrdfiffRHHRYIfetkeskgsdangkkakdaksekTSQQKVITRLQECGPRFTLKLVSLQhgtfdtkggefewvhkpemdtsrrrffl
Flexible Loop (DISEMBL)
mtprtientrepdetvcrpdDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLiiglpdgptAHFKLSKLVLRKDIKNhgnptghipeLVLNNFATRLGHRVGRLIQslfpqspefrgrRVVTFHNQRDFIFFRHHRYIFetkeskgsdangkkakdaksektsqqKVITRLQECGPRFTLKLVSLQHgtfdtkggefewvhkpemdtsrrrffl
Low Complexity Region (SEG)
MTPRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAHFKLSKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVTFHNQRDFIFFRHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKLVSLQHGTFDTKGGEFEWVHKPEMDTSRRRFFL
Disordered region (IsUnstruct)
******************************DEFSSILKQGCAPKILITTCRFNSNRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAHFKLSKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVTFHNQRDFIFFRHHRYIFE**************************VITRLQECGPRFTLKLVSLQHGTFDTKGGEFEWVH*************
Disordered Region (DISOPRED)
MTPRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAHFKLSKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVTFHNQRDFIFFRHHRYIFE*******************************QECGPRFTLKLVSLQHGTFDTKGGEFEWVHKPEMDT**RRFFL
Disordered Region (DISEMBL)
**************TVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAHFKLSKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVTFHNQRDFIFFRHHRYIFETK************************VITRLQECGPRFTLKLVSLQHGTFDTKGGEFEWVHKPEMDTSRRRFFL
Disordered Region (DISPRO)
******************PDDDE*FAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAHFKLSKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVTFHNQRDFIFFRHHRYIFETKE*********************QKVITRLQECGPRFTLKLVSLQHGTFDTKGGEFEWVHKPEMDTSR*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MTPRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAHFKLSKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVTFHNQRDFIFFRHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKLVSLQHGTFDTKGGEFEWVHKPEMDTSRRRFFL
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	272	2.2.26 [Sep-21-2011]
Q5R631	349	Ribosome production facto	yes	no	0.908	0.707	0.509	7e-71
Q9H9Y2	349	Ribosome production facto	yes	no	0.908	0.707	0.509	8e-71
Q7TND5	349	Ribosome production facto	yes	no	0.908	0.707	0.501	2e-70
Q8AVP1	343	Ribosome production facto	N/A	no	0.908	0.720	0.487	1e-67
Q6IQU6	330	Ribosome production facto	yes	no	0.908	0.748	0.483	2e-66
Q5RJS9	345	Ribosome production facto	yes	no	0.863	0.681	0.488	8e-66
P54073	384	Brix domain-containing pr	yes	no	0.911	0.645	0.466	9e-62
Q9VKB4	394	Probable ribosome product	yes	no	0.900	0.621	0.469	2e-57
O14180	306	Brix domain-containing pr	yes	no	0.926	0.823	0.428	2e-52
P38805	295	Ribosome production facto	yes	no	0.852	0.786	0.418	1e-51

>sp|Q5R631|RPF1_PONAB Ribosome production factor 1 OS=Pongo abelii GN=RPF1 PE=2 SV=1

 Score =  267 bits (682), Expect = 7e-71,   Method: Compositional matrix adjust.
 Identities = 139/273 (50%), Positives = 178/273 (65%), Gaps = 26/273 (9%)

Query: 2   TPRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFI 61
            P+TI+N R  DET   P+D+E+      DEF+S   +  +PKILITT      R     
Sbjct: 101 VPKTIDNQRVYDETTVDPNDEEVAYDEATDEFASYFNKQTSPKILITTSDRPHGRTVRLC 160

Query: 62  SELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAH 121
            +L +VIPNSH Y R    LKKII     +DFT +IV++ +R+ P+ L++  LP+GPTAH
Sbjct: 161 EQLSTVIPNSHVYYRRGLALKKIIPQCIARDFTDLIVINEDRKTPNGLILSHLPNGPTAH 220

Query: 122 FKLSKLVLRKDIKNHG-NPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVT 180
           FK+S + LRK+IK  G +PT HIPE++LNNF TRLGH +GR+  SLFP +P+F GR+V T
Sbjct: 221 FKMSSVRLRKEIKRRGKDPTEHIPEIILNNFTTRLGHSIGRMFASLFPHNPQFIGRQVAT 280

Query: 181 FHNQRDFIFFRHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKL 240
           FHNQRD+IFFR HRYIF +++  G                        +QE GPRFTLKL
Sbjct: 281 FHNQRDYIFFRFHRYIFRSEKKVG------------------------IQELGPRFTLKL 316

Query: 241 VSLQHGTFDTKGGEFEWVHKP-EMDTSRRRFFL 272
            SLQ GTFD+K GE+EWVHKP EMDTSRR+F L
Sbjct: 317 RSLQKGTFDSKYGEYEWVHKPREMDTSRRKFHL 349

May be required for ribosome biogenesis.
Pongo abelii (taxid: 9601)

>sp|Q9H9Y2|RPF1_HUMAN Ribosome production factor 1 OS=Homo sapiens GN=RPF1 PE=1 SV=2

 Score =  267 bits (682), Expect = 8e-71,   Method: Compositional matrix adjust.
 Identities = 139/273 (50%), Positives = 178/273 (65%), Gaps = 26/273 (9%)

Query: 2   TPRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFI 61
            P+TI+N R  DET   P+D+E+      DEF+S   +  +PKILITT      R     
Sbjct: 101 VPKTIDNQRVYDETTVDPNDEEVAYDEATDEFASYFNKQTSPKILITTSDRPHGRTVRLC 160

Query: 62  SELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAH 121
            +L +VIPNSH Y R    LKKII     +DFT +IV++ +R+ P+ L++  LP+GPTAH
Sbjct: 161 EQLSTVIPNSHVYYRRGLALKKIIPQCIARDFTDLIVINEDRKTPNGLILSHLPNGPTAH 220

Query: 122 FKLSKLVLRKDIKNHG-NPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVT 180
           FK+S + LRK+IK  G +PT HIPE++LNNF TRLGH +GR+  SLFP +P+F GR+V T
Sbjct: 221 FKMSSVRLRKEIKRRGKDPTEHIPEIILNNFTTRLGHSIGRMFASLFPHNPQFIGRQVAT 280

Query: 181 FHNQRDFIFFRHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKL 240
           FHNQRD+IFFR HRYIF +++  G                        +QE GPRFTLKL
Sbjct: 281 FHNQRDYIFFRFHRYIFRSEKKVG------------------------IQELGPRFTLKL 316

Query: 241 VSLQHGTFDTKGGEFEWVHKP-EMDTSRRRFFL 272
            SLQ GTFD+K GE+EWVHKP EMDTSRR+F L
Sbjct: 317 RSLQKGTFDSKYGEYEWVHKPREMDTSRRKFHL 349

May be required for ribosome biogenesis.

Homo sapiens (taxid: 9606)

>sp|Q7TND5|RPF1_MOUSE Ribosome production factor 1 OS=Mus musculus GN=Rpf1 PE=2 SV=2

 Score =  265 bits (677), Expect = 2e-70,   Method: Compositional matrix adjust.
 Identities = 137/273 (50%), Positives = 179/273 (65%), Gaps = 26/273 (9%)

Query: 2   TPRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFI 61
            P+TI+N R  DET   P+D+E+      DEF+S   +  +PKILITT      R     
Sbjct: 101 VPKTIDNQRVYDETTVDPNDEEVAYDEATDEFASYFNRQTSPKILITTSDRPHGRTVRLC 160

Query: 62  SELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAH 121
            +L +VIP+SH Y R    LKKII     +DFT +IV++ +R+ P+ L++  LP+GPTAH
Sbjct: 161 EQLSTVIPDSHVYYRRGLALKKIIPQCIARDFTDLIVINEDRKTPNGLILSHLPNGPTAH 220

Query: 122 FKLSKLVLRKDIKNHG-NPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVT 180
           FK+S + LRK+IK  G +PT H+PE++LNNF TRLGH +GR+  SLFP +P+F GR+V T
Sbjct: 221 FKMSSVRLRKEIKRRGKDPTEHVPEIILNNFTTRLGHSIGRMFASLFPHNPQFIGRQVAT 280

Query: 181 FHNQRDFIFFRHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKL 240
           FHNQRD+IFFR HRYIF++++  G                        +QE GPRFTLKL
Sbjct: 281 FHNQRDYIFFRFHRYIFKSEKKVG------------------------IQELGPRFTLKL 316

Query: 241 VSLQHGTFDTKGGEFEWVHKP-EMDTSRRRFFL 272
            SLQ GTFD+K GE+EWVHKP EMDTSRR+F L
Sbjct: 317 RSLQKGTFDSKYGEYEWVHKPREMDTSRRKFHL 349

May be required for ribosome biogenesis.

Mus musculus (taxid: 10090)

>sp|Q8AVP1|RPF1_XENLA Ribosome production factor 1 OS=Xenopus laevis GN=rpf1 PE=2 SV=1

 Score =  256 bits (654), Expect = 1e-67,   Method: Compositional matrix adjust.
 Identities = 133/273 (48%), Positives = 172/273 (63%), Gaps = 26/273 (9%)

Query: 2   TPRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFI 61
            P+TIEN R  DET   P D+E+      DEF+    +   PKILITT      R   F 
Sbjct: 95  VPKTIENQRVYDETTVDPADEEVALDEATDEFAPYFNKQTTPKILITTSDRPRGRSVRFT 154

Query: 62  SELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAH 121
            +L S+IPNS  Y R    LKKII     +D+T ++V++ +R+ P+ L++  LPDGPTAH
Sbjct: 155 EQLSSIIPNSDVYYRRGLALKKIIPQCVSRDYTDLLVINEDRKVPNGLVLCHLPDGPTAH 214

Query: 122 FKLSKLVLRKDIKNHG-NPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVT 180
           FK+S + LRK++K  G  PT H PE++LNNF TRLGH +GR+  SL+P  P F GR+V T
Sbjct: 215 FKISNVRLRKEMKRKGKEPTEHKPEVILNNFTTRLGHSIGRMFASLYPHDPHFVGRQVAT 274

Query: 181 FHNQRDFIFFRHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKL 240
           FHNQRD+IFFR+HRY+F++++  G                        +QE GPRFTLKL
Sbjct: 275 FHNQRDYIFFRYHRYLFKSEKKVG------------------------IQELGPRFTLKL 310

Query: 241 VSLQHGTFDTKGGEFEWVHKP-EMDTSRRRFFL 272
            SLQ GTFD+K GE+EWVHK  EMDTSRR+F L
Sbjct: 311 RSLQKGTFDSKYGEYEWVHKRHEMDTSRRKFHL 343

May be required for ribosome biogenesis.

Xenopus laevis (taxid: 8355)

>sp|Q6IQU6|RPF1_DANRE Ribosome production factor 1 OS=Danio rerio GN=rpf1 PE=2 SV=1

 Score =  252 bits (643), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 132/273 (48%), Positives = 174/273 (63%), Gaps = 26/273 (9%)

Query: 2   TPRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFI 61
            P+TIEN R  DET   P+D+E+      DEFS+   +   PK+LITT      R   F 
Sbjct: 82  VPKTIENQRIYDETTVNPEDEEVAFDEGTDEFSAYFNRLTNPKVLITTSDRPRGRTVRFC 141

Query: 62  SELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAH 121
            +L +VIP+++ Y R    LKK+I     + FT ++V++ +R+ P+ +++  LPDGPTAH
Sbjct: 142 DQLATVIPHAYVYYRRGLALKKVIPQCISRGFTYLMVINEDRKVPNGMVLCHLPDGPTAH 201

Query: 122 FKLSKLVLRKDIKNHG-NPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVT 180
           FK+S + LRK++K  G NPT H PE++LNNF TRLGH +GRL  +LFP  P+F GR+V T
Sbjct: 202 FKVSSVRLRKEMKRRGKNPTEHSPEVILNNFTTRLGHSIGRLFAALFPHDPQFVGRQVAT 261

Query: 181 FHNQRDFIFFRHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKL 240
           FHNQRDFIFFR HRYIF+ ++  G                        +QE GPRFTLKL
Sbjct: 262 FHNQRDFIFFRFHRYIFKNEKKVG------------------------IQELGPRFTLKL 297

Query: 241 VSLQHGTFDTKGGEFEWVHK-PEMDTSRRRFFL 272
            SLQ GTFD+K GE+EWVHK  EMD+SRR+F L
Sbjct: 298 RSLQKGTFDSKFGEYEWVHKRHEMDSSRRKFHL 330

May be required for ribosome biogenesis.

Danio rerio (taxid: 7955)

>sp|Q5RJS9|RPF1_RAT Ribosome production factor 1 OS=Rattus norvegicus GN=Rpf1 PE=2 SV=2

 Score =  250 bits (638), Expect = 8e-66,   Method: Compositional matrix adjust.
 Identities = 127/260 (48%), Positives = 168/260 (64%), Gaps = 25/260 (9%)

Query: 2   TPRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFI 61
            P+TI+N R  DET   P+D+E+      DEF+S   +  +PKILITT      R     
Sbjct: 101 VPKTIDNQRVYDETTVDPNDEEVAYDEATDEFASYFNRQTSPKILITTSDRPHGRTVRLC 160

Query: 62  SELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAH 121
            +L +VIP+SH Y R    LKKII     +DFT +IV++ +R+ P+ L++  LP+GPTAH
Sbjct: 161 EQLSTVIPDSHVYYRRGLALKKIIPQCIARDFTDLIVINEDRKTPNGLILSHLPNGPTAH 220

Query: 122 FKLSKLVLRKDIKNHG-NPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVT 180
           FK+S + LRK+IK  G +PT H+PE++LNNF TRLGH +GR+  SLFP +P+F GR+V T
Sbjct: 221 FKMSSVRLRKEIKRRGKDPTEHVPEIILNNFTTRLGHSIGRMFASLFPHNPQFIGRQVAT 280

Query: 181 FHNQRDFIFFRHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKL 240
           FHNQRD+IFFR HRYIF++++  G                        +QE GPRFTLKL
Sbjct: 281 FHNQRDYIFFRFHRYIFKSEKKVG------------------------IQELGPRFTLKL 316

Query: 241 VSLQHGTFDTKGGEFEWVHK 260
            SLQ GTFD+K GE+EWVHK
Sbjct: 317 RSLQKGTFDSKYGEYEWVHK 336

May be required for ribosome biogenesis.

Rattus norvegicus (taxid: 10116)

>sp|P54073|YUY1_CAEEL Brix domain-containing protein F44G4.1 OS=Caenorhabditis elegans GN=F44G4.1 PE=4 SV=4

 Score =  236 bits (603), Expect = 9e-62,   Method: Compositional matrix adjust.
 Identities = 127/272 (46%), Positives = 167/272 (61%), Gaps = 24/272 (8%)

Query: 2   TPRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFI 61
            P+TIE+ RE D T+   +DDE+      DEF+    +  +PK++IT           F 
Sbjct: 136 VPKTIESMREYDATMVNEEDDEVEHDEANDEFAPYFNRETSPKVMITMTPKAKITTFKFC 195

Query: 62  SELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAH 121
            EL   IPNS  + R    LK IIE AK+++FT ++VVH +R++P+ ++   LP+GPTA+
Sbjct: 196 FELQKCIPNSEIFTRKNVLLKTIIEQAKEREFTDLLVVHEDRKKPNGIIFCHLPEGPTAY 255

Query: 122 FKLSKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVTF 181
           FK++ L   +D+K  G  T H PE++LNNF TRLGH + R++  LFP  P+F GRRVVTF
Sbjct: 256 FKINSLTFTQDLKKFGESTSHFPEVILNNFNTRLGHNIARMLACLFPHDPKFTGRRVVTF 315

Query: 182 HNQRDFIFFRHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKLV 241
           HNQRD+IFFRHHRY F+ + SK +                       L E GPRFTL+L 
Sbjct: 316 HNQRDYIFFRHHRYEFKKEGSKAA-----------------------LLELGPRFTLRLK 352

Query: 242 SLQHGTFDTKGGEFEWVHKP-EMDTSRRRFFL 272
            LQ GTFD K GEFEWV K  EM+TSRRRFFL
Sbjct: 353 WLQKGTFDAKWGEFEWVLKRHEMETSRRRFFL 384

Caenorhabditis elegans (taxid: 6239)

>sp|Q9VKB4|RPF1_DROME Probable ribosome production factor 1 OS=Drosophila melanogaster GN=CG6712 PE=2 SV=1

 Score =  222 bits (566), Expect = 2e-57,   Method: Compositional matrix adjust.
 Identities = 129/275 (46%), Positives = 171/275 (62%), Gaps = 30/275 (10%)

Query: 5   TIENTREPDET----VCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAF 60
           TIE+ RE D+T    +   D++EL      D+FSS  ++   PK+LIT       +   F
Sbjct: 143 TIESLREKDQTEVANLNDSDNEELQKELQLDDFSSYFERSYEPKVLITFADNPVTKTRKF 202

Query: 61  ISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTA 120
             EL  + PN+    R    +KKI + A++++FT +++V+ +RR+P+ LL+I LP+GPTA
Sbjct: 203 GLELSRIFPNALVKIRNKSSVKKICKSAEREEFTDVVIVNEDRRKPNGLLVIHLPNGPTA 262

Query: 121 HFKLSKLVLRKDIK-NHGNPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVV 179
           HFKLS + L  DIK +H   T H PE++LNNF TRLG  VGR++ +LF   PEFRGRR V
Sbjct: 263 HFKLSNVKLTSDIKRDHKEITKHRPEVILNNFTTRLGLTVGRMLGALFHHDPEFRGRRAV 322

Query: 180 TFHNQRDFIFFRHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLK 239
           TFHNQRD+IFFRHHRY F TKE       GK+ K               L+E GPRFTLK
Sbjct: 323 TFHNQRDYIFFRHHRYEF-TKE-------GKRVK---------------LRELGPRFTLK 359

Query: 240 LVSLQHGTFDTKGGEFEWV--HKPEMDTSRRRFFL 272
           L SLQ GTFD+K G++ W+  +K     SRRRFFL
Sbjct: 360 LRSLQEGTFDSKTGDYAWIISNKRHAMESRRRFFL 394

May be required for ribosome biogenesis.

Drosophila melanogaster (taxid: 7227)

>sp|O14180|YDS4_SCHPO Brix domain-containing protein C4F8.04 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPAC4F8.04 PE=4 SV=1

 Score =  205 bits (522), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 117/273 (42%), Positives = 165/273 (60%), Gaps = 21/273 (7%)

Query: 3   PRTIENTREPDETVCRPD-DDELFAGNDADEFSSIL-KQGCAPKILITTCRFNSNRGPAF 60
           P TIE+ R  DET+     D+EL A    DEFS+   ++   PK+L+TT +  S +   F
Sbjct: 52  PATIESKRVYDETIIEDKPDEELQAELKDDEFSAYFSEERKVPKLLVTTSKRASRKCYDF 111

Query: 61  ISELLSVIPNSHYYKR-GTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPT 119
            SELL   PN+ + KR G  ++ +I E A K+ +T ++V++ +R++ +AL ++ LP+GP+
Sbjct: 112 ASELLDCFPNAEFRKRTGDIEVHEIAEAAAKRGYTDLLVLNEDRKKTNALTLVHLPNGPS 171

Query: 120 AHFKLSKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVV 179
            +F LS L   K+I NHG  TGHIPEL++NNF+TRLG  V R  QSLF Q+P+ +GR+VV
Sbjct: 172 FYFTLSNLQTAKEISNHGRSTGHIPELIINNFSTRLGMTVARAFQSLFIQTPQIQGRQVV 231

Query: 180 TFHNQRDFIFFRHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLK 239
           T H QRDF+FFR HRY F  K S   D  G                 T LQE GPRFT++
Sbjct: 232 TIHCQRDFLFFRRHRYAFREK-SNMPDGIG-----------------TGLQELGPRFTMR 273

Query: 240 LVSLQHGTFDTKGGEFEWVHKPEMDTSRRRFFL 272
           L  +Q G +D K GE  +      ++ RR+F+L
Sbjct: 274 LRMVQKGVWDRKEGEVFFESNAGEESDRRKFWL 306

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|P38805|RPF1_YEAST Ribosome production factor 1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RPF1 PE=1 SV=1

 Score =  203 bits (516), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 115/275 (41%), Positives = 160/275 (58%), Gaps = 43/275 (15%)

Query: 4   RTIENTREPDETVCRP---DDDEL--FAGNDADEFSSILKQGCAPKILITTCRFNSNRGP 58
           +TIENTR  DET+ +    D+D+L  +  ++++E          PKI +TT         
Sbjct: 58  QTIENTRVYDETINKEVEGDEDDLMRYFNSNSNE---------PPKIFLTTNVNAKKSAY 108

Query: 59  AFISELLSVIPNSHYYKRG-TYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDG 117
            F + L+ ++PN  + KR   Y LK+I +   K++FT I++++ ++++   L  I LP+G
Sbjct: 109 EFANILIEILPNVTFVKRKFGYKLKEISDICIKRNFTDIVIINEDKKKVTGLTFIHLPEG 168

Query: 118 PTAHFKLSKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRR 177
           PT +FKLS  V  K I  HG PT HIPEL+LNNF TRLG  VGRL QS+ PQ+P+  GR+
Sbjct: 169 PTFYFKLSSFVEVKKIVGHGRPTSHIPELILNNFQTRLGQTVGRLFQSILPQNPDIEGRQ 228

Query: 178 VVTFHNQRDFIFFRHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFT 237
           V+T HNQRD+IFFR HRY+F+  E  G                        LQE GP+FT
Sbjct: 229 VITLHNQRDYIFFRRHRYVFKDNERVG------------------------LQELGPQFT 264

Query: 238 LKLVSLQHGTFDTKGGEFEWVHKPEMDTSRRRFFL 272
           LKL  LQ G  +    E EW HKPEMD  +++F+L
Sbjct: 265 LKLKRLQRGIKE----ETEWEHKPEMDKEKKKFYL 295

Essential protein. Required for biogenesis of the 60S ribosomal subunit.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	272
359488064	801	PREDICTED: uncharacterized protein LOC10	0.992	0.337	0.866	1e-139
359480784	346	PREDICTED: ribosome production factor 1-	0.992	0.780	0.866	1e-139
302143564	346	unnamed protein product [Vitis vinifera]	0.992	0.780	0.866	1e-139
296082657	319	unnamed protein product [Vitis vinifera]	0.992	0.846	0.866	1e-138
356559438	354	PREDICTED: LOW QUALITY PROTEIN: ribosome	0.996	0.765	0.867	1e-138
363807176	354	uncharacterized protein LOC100785331 [Gl	0.996	0.765	0.863	1e-137
82621156	335	putative RNA processing factor 1-like [S	0.988	0.802	0.819	1e-133
224130720	370	predicted protein [Populus trichocarpa]	0.988	0.727	0.851	1e-133
224068234	361	predicted protein [Populus trichocarpa]	0.992	0.747	0.874	1e-132
242094590	362	hypothetical protein SORBIDRAFT_10g00253	0.996	0.748	0.812	1e-131

>gi|359488064|ref|XP_003633697.1| PREDICTED: uncharacterized protein LOC100263155 [Vitis vinifera]

 Score =  501 bits (1290), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 234/270 (86%), Positives = 250/270 (92%)

Query: 3   PRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFIS 62
           PRTIENTRE DETVC+PDD+ELFAGNDADEFSSIL +   PKILITTCRFNS RGPAFIS
Sbjct: 532 PRTIENTREFDETVCKPDDEELFAGNDADEFSSILNRKSDPKILITTCRFNSTRGPAFIS 591

Query: 63  ELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAHF 122
           ELLSVIPN+HYYKRGTYDLKKI+EYAK KDFTS+IVVHTNRREPDALLIIGLPDGPTAHF
Sbjct: 592 ELLSVIPNAHYYKRGTYDLKKIVEYAKIKDFTSLIVVHTNRREPDALLIIGLPDGPTAHF 651

Query: 123 KLSKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVTFH 182
           KLSKLVL KD+KNHGNPT HIPELVLNNF TRLGHR+GR+IQSLFPQ+P FRGRRVVTFH
Sbjct: 652 KLSKLVLHKDVKNHGNPTSHIPELVLNNFTTRLGHRIGRMIQSLFPQAPNFRGRRVVTFH 711

Query: 183 NQRDFIFFRHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKLVS 242
           NQRDFIFFRHHRYIFE+KESK  D  G K KDAK EK+SQ KV+ RLQECGPRFTLKL++
Sbjct: 712 NQRDFIFFRHHRYIFESKESKQGDTKGNKDKDAKGEKSSQGKVVARLQECGPRFTLKLIN 771

Query: 243 LQHGTFDTKGGEFEWVHKPEMDTSRRRFFL 272
           LQHGTFDTKGGE+EWVHKPEMDTSRRRFFL
Sbjct: 772 LQHGTFDTKGGEYEWVHKPEMDTSRRRFFL 801

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359480784|ref|XP_002268541.2| PREDICTED: ribosome production factor 1-like [Vitis vinifera]

 Score =  498 bits (1283), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 234/270 (86%), Positives = 251/270 (92%)

Query: 3   PRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFIS 62
           P TIENTRE DETVC+PDD+ELFAGNDADEFSSIL +   PKILITTCRFNS RGPAFIS
Sbjct: 77  PHTIENTREFDETVCKPDDEELFAGNDADEFSSILNRKSDPKILITTCRFNSTRGPAFIS 136

Query: 63  ELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAHF 122
           ELLSVIPN+HYYKRGTYDLKKI+EYAKKKDFTS+IVVHTNRREPDALLIIGLPDGPTAHF
Sbjct: 137 ELLSVIPNAHYYKRGTYDLKKIVEYAKKKDFTSLIVVHTNRREPDALLIIGLPDGPTAHF 196

Query: 123 KLSKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVTFH 182
           KLSKLVLRKD+KNHGNPT HIPELVLNNF TRLGHR+GR+IQSLFPQ+P F GRRVVTFH
Sbjct: 197 KLSKLVLRKDVKNHGNPTSHIPELVLNNFTTRLGHRIGRMIQSLFPQAPNFGGRRVVTFH 256

Query: 183 NQRDFIFFRHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKLVS 242
           NQRDFIFFRHHRYIFE+KESK  D+ G K KDAK EK+S+ KV+ RLQECGPRFTLKL+S
Sbjct: 257 NQRDFIFFRHHRYIFESKESKQGDSKGNKDKDAKGEKSSRGKVVARLQECGPRFTLKLIS 316

Query: 243 LQHGTFDTKGGEFEWVHKPEMDTSRRRFFL 272
           LQHGTFDTKGGE+EWVHKPEMDTSRRRFFL
Sbjct: 317 LQHGTFDTKGGEYEWVHKPEMDTSRRRFFL 346

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302143564|emb|CBI22317.3| unnamed protein product [Vitis vinifera]

 Score =  498 bits (1283), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 234/270 (86%), Positives = 250/270 (92%)

Query: 3   PRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFIS 62
           PRTIENTRE DETVC+PDD+ELFAGNDADEFSSIL +   PKILITTCRFNS RGPAFIS
Sbjct: 77  PRTIENTREFDETVCKPDDEELFAGNDADEFSSILNRKSDPKILITTCRFNSTRGPAFIS 136

Query: 63  ELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAHF 122
           ELLSVIPN+HYYKRGTYDLKKI+EYAK KDFTS+IVVHTNRREPDALLIIGLPDGPTAHF
Sbjct: 137 ELLSVIPNAHYYKRGTYDLKKIVEYAKIKDFTSLIVVHTNRREPDALLIIGLPDGPTAHF 196

Query: 123 KLSKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVTFH 182
           KLSKLVL KD+KNHGNPT HIPELVLNNF TRLGHR+GR+IQSLFPQ+P FRGRRVVTFH
Sbjct: 197 KLSKLVLHKDVKNHGNPTSHIPELVLNNFTTRLGHRIGRMIQSLFPQAPNFRGRRVVTFH 256

Query: 183 NQRDFIFFRHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKLVS 242
           NQRDFIFFRHHRYIFE+KESK  D  G K KDAK EK+SQ KV+ RLQECGPRFTLKL++
Sbjct: 257 NQRDFIFFRHHRYIFESKESKQGDTKGNKDKDAKGEKSSQGKVVARLQECGPRFTLKLIN 316

Query: 243 LQHGTFDTKGGEFEWVHKPEMDTSRRRFFL 272
           LQHGTFDTKGGE+EWVHKPEMDTSRRRFFL
Sbjct: 317 LQHGTFDTKGGEYEWVHKPEMDTSRRRFFL 346

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296082657|emb|CBI21662.3| unnamed protein product [Vitis vinifera]

 Score =  497 bits (1280), Expect = e-138,   Method: Compositional matrix adjust.
 Identities = 234/270 (86%), Positives = 251/270 (92%)

Query: 3   PRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFIS 62
           P TIENTRE DETVC+PDD+ELFAGNDADEFSSIL +   PKILITTCRFNS RGPAFIS
Sbjct: 50  PHTIENTREFDETVCKPDDEELFAGNDADEFSSILNRKSDPKILITTCRFNSTRGPAFIS 109

Query: 63  ELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAHF 122
           ELLSVIPN+HYYKRGTYDLKKI+EYAKKKDFTS+IVVHTNRREPDALLIIGLPDGPTAHF
Sbjct: 110 ELLSVIPNAHYYKRGTYDLKKIVEYAKKKDFTSLIVVHTNRREPDALLIIGLPDGPTAHF 169

Query: 123 KLSKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVTFH 182
           KLSKLVLRKD+KNHGNPT HIPELVLNNF TRLGHR+GR+IQSLFPQ+P F GRRVVTFH
Sbjct: 170 KLSKLVLRKDVKNHGNPTSHIPELVLNNFTTRLGHRIGRMIQSLFPQAPNFGGRRVVTFH 229

Query: 183 NQRDFIFFRHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKLVS 242
           NQRDFIFFRHHRYIFE+KESK  D+ G K KDAK EK+S+ KV+ RLQECGPRFTLKL+S
Sbjct: 230 NQRDFIFFRHHRYIFESKESKQGDSKGNKDKDAKGEKSSRGKVVARLQECGPRFTLKLIS 289

Query: 243 LQHGTFDTKGGEFEWVHKPEMDTSRRRFFL 272
           LQHGTFDTKGGE+EWVHKPEMDTSRRRFFL
Sbjct: 290 LQHGTFDTKGGEYEWVHKPEMDTSRRRFFL 319

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356559438|ref|XP_003548006.1| PREDICTED: LOW QUALITY PROTEIN: ribosome production factor 1-like [Glycine max]

 Score =  496 bits (1278), Expect = e-138,   Method: Compositional matrix adjust.
 Identities = 235/271 (86%), Positives = 250/271 (92%)

Query: 2   TPRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFI 61
            PRTIENTRE DETVC+PDDDELFAGNDADEF SIL Q   PKILITTCRF+S RGPAFI
Sbjct: 84  VPRTIENTRELDETVCKPDDDELFAGNDADEFGSILNQQQTPKILITTCRFHSTRGPAFI 143

Query: 62  SELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAH 121
           SELLSVIPN+HY+KRGTYDLKKI+EYAKKKDFTS+IVVHTNRREPDALLIIG+PDGPTAH
Sbjct: 144 SELLSVIPNAHYFKRGTYDLKKIVEYAKKKDFTSVIVVHTNRREPDALLIIGVPDGPTAH 203

Query: 122 FKLSKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVTF 181
           FKLSKLVLRKDIKNHGNPTGH PELVLNNF TRLGHRVGRLIQSLFPQ PEF+GRRVVTF
Sbjct: 204 FKLSKLVLRKDIKNHGNPTGHKPELVLNNFTTRLGHRVGRLIQSLFPQDPEFKGRRVVTF 263

Query: 182 HNQRDFIFFRHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKLV 241
           HNQRDFIFFRHHRYIFETKE K +++ GKK K+ KSE   +QK I RLQECGPRFTLKL+
Sbjct: 264 HNQRDFIFFRHHRYIFETKEVKKTESKGKKDKEGKSENVPEQKTIARLQECGPRFTLKLI 323

Query: 242 SLQHGTFDTKGGEFEWVHKPEMDTSRRRFFL 272
           SLQHGTFDTKGGE+EWVHKPEMDTSRRRFFL
Sbjct: 324 SLQHGTFDTKGGEYEWVHKPEMDTSRRRFFL 354

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|363807176|ref|NP_001242604.1| uncharacterized protein LOC100785331 [Glycine max] gi|255644450|gb|ACU22729.1| unknown [Glycine max]

 Score =  494 bits (1273), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 234/271 (86%), Positives = 249/271 (91%)

Query: 2   TPRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFI 61
            PRTIENTRE DETVC+PDD+ELFAGNDADEF  IL Q   PKILITTCRF+S RGPAFI
Sbjct: 84  VPRTIENTRELDETVCKPDDEELFAGNDADEFGPILNQQQTPKILITTCRFHSTRGPAFI 143

Query: 62  SELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAH 121
           SELLSVIPN+HY+KRGTYDLKKI+EYAKKKDFTSIIVVHTNRREPDALLIIG+PDGPTAH
Sbjct: 144 SELLSVIPNAHYFKRGTYDLKKIVEYAKKKDFTSIIVVHTNRREPDALLIIGVPDGPTAH 203

Query: 122 FKLSKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVTF 181
           FKLSKLVLRKDIKNHGNPTGH PELVLNNF TRLGHRVGRLIQSLFPQ PEF+GRRVVTF
Sbjct: 204 FKLSKLVLRKDIKNHGNPTGHKPELVLNNFTTRLGHRVGRLIQSLFPQDPEFKGRRVVTF 263

Query: 182 HNQRDFIFFRHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKLV 241
           HNQRDFIFFRHHRYIFETKE K +++ GKK KD +SE   +QK I RLQECGPRFTLKL+
Sbjct: 264 HNQRDFIFFRHHRYIFETKEVKKAESKGKKDKDGESENVPEQKTIARLQECGPRFTLKLI 323

Query: 242 SLQHGTFDTKGGEFEWVHKPEMDTSRRRFFL 272
           SLQHGTFDTKGGE+EWVHKPEMDTSRRRFFL
Sbjct: 324 SLQHGTFDTKGGEYEWVHKPEMDTSRRRFFL 354

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|82621156|gb|ABB86266.1| putative RNA processing factor 1-like [Solanum tuberosum]

 Score =  479 bits (1232), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 223/272 (81%), Positives = 246/272 (90%), Gaps = 3/272 (1%)

Query: 1   MTPRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAF 60
           M PRTIENTRE DETVC PDD+ELFAGND DEFS++LK   +PKILITT R+NS RGPAF
Sbjct: 67  MVPRTIENTRESDETVCLPDDEELFAGNDVDEFSAVLKNERSPKILITTSRYNSTRGPAF 126

Query: 61  ISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTA 120
           IS+L+SVIPN+HYYKRGTYDLKKI++YA +K+FTS+IVVHTNRREPDALL+IGLPDGPTA
Sbjct: 127 ISDLISVIPNAHYYKRGTYDLKKIVQYANEKEFTSVIVVHTNRREPDALLVIGLPDGPTA 186

Query: 121 HFKLSKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVT 180
           HFKLSKL+LRKDIKNHG PT H PELVL NF TRLGHRVGR+IQSLFPQ PEFRGRRVVT
Sbjct: 187 HFKLSKLMLRKDIKNHGKPTSHKPELVLTNFTTRLGHRVGRMIQSLFPQDPEFRGRRVVT 246

Query: 181 FHNQRDFIFFRHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKL 240
           FHNQRDFIFFRHHRYIFETKESK  ++ GKK+KD   EK  Q++ I RLQECGPRFTLKL
Sbjct: 247 FHNQRDFIFFRHHRYIFETKESKQKESKGKKSKD---EKNPQERTIARLQECGPRFTLKL 303

Query: 241 VSLQHGTFDTKGGEFEWVHKPEMDTSRRRFFL 272
           +SLQHGTFDTKGGE+EWVHKPEMDTSRRRFFL
Sbjct: 304 ISLQHGTFDTKGGEYEWVHKPEMDTSRRRFFL 335

Source: Solanum tuberosum

Species: Solanum tuberosum

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224130720|ref|XP_002320911.1| predicted protein [Populus trichocarpa] gi|222861684|gb|EEE99226.1| predicted protein [Populus trichocarpa]

 Score =  478 bits (1231), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 230/270 (85%), Positives = 244/270 (90%), Gaps = 1/270 (0%)

Query: 3   PRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFIS 62
           PRTIENTRE DETVC+PDD ELFAGNDADEFSS+LK+   PKILITT RFNS RGPAFIS
Sbjct: 102 PRTIENTREFDETVCKPDD-ELFAGNDADEFSSVLKRDRIPKILITTSRFNSTRGPAFIS 160

Query: 63  ELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAHF 122
           ELL VIPN+HYYKRGTYDLKKI+EYAKK+DFTS+IVVHTNRREPD LLIIGLPDGPTAHF
Sbjct: 161 ELLEVIPNAHYYKRGTYDLKKIVEYAKKQDFTSLIVVHTNRREPDGLLIIGLPDGPTAHF 220

Query: 123 KLSKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVTFH 182
           KLS+LVLRKDIK+HGNPT H PELVL NF T LGHR+GRLIQSLFPQ P FRGRRVVTFH
Sbjct: 221 KLSRLVLRKDIKSHGNPTSHEPELVLTNFTTCLGHRIGRLIQSLFPQEPNFRGRRVVTFH 280

Query: 183 NQRDFIFFRHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKLVS 242
           NQRD+IFFRHHRYIFETKESK SD+ GK  KD K EK +QQKVI RLQECGPRFTLKL S
Sbjct: 281 NQRDYIFFRHHRYIFETKESKQSDSKGKNRKDGKGEKNTQQKVIARLQECGPRFTLKLRS 340

Query: 243 LQHGTFDTKGGEFEWVHKPEMDTSRRRFFL 272
           LQH TFDTKGGE+EWVHKPEMDTSRRRFFL
Sbjct: 341 LQHETFDTKGGEYEWVHKPEMDTSRRRFFL 370

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224068234|ref|XP_002302686.1| predicted protein [Populus trichocarpa] gi|222844412|gb|EEE81959.1| predicted protein [Populus trichocarpa]

 Score =  478 bits (1229), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 236/270 (87%), Positives = 248/270 (91%)

Query: 3   PRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFIS 62
           PRTIENTRE DETVC+PDD+ELFAGNDADEFSSILK+   PKILITT RFNS RGPAFIS
Sbjct: 92  PRTIENTRENDETVCKPDDEELFAGNDADEFSSILKRERTPKILITTSRFNSTRGPAFIS 151

Query: 63  ELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAHF 122
           ELL VIPN+HYYKRGTYDLKKI+EYAKK+DFTS+IVVHTNRREPDALLIIGLPDGPTAHF
Sbjct: 152 ELLQVIPNAHYYKRGTYDLKKIVEYAKKQDFTSLIVVHTNRREPDALLIIGLPDGPTAHF 211

Query: 123 KLSKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVTFH 182
           KLS+LVLRKDIKNHGNPT H PELVL NF TRLGHR GR+IQSLFPQ P FRGRRVVTFH
Sbjct: 212 KLSRLVLRKDIKNHGNPTSHEPELVLTNFTTRLGHRAGRIIQSLFPQEPNFRGRRVVTFH 271

Query: 183 NQRDFIFFRHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKLVS 242
           NQRD+IFFRHHRYIFETKESK SD+ GKK KD K EK SQQKVI RLQECGPRFTLKL S
Sbjct: 272 NQRDYIFFRHHRYIFETKESKQSDSKGKKGKDGKGEKISQQKVIARLQECGPRFTLKLRS 331

Query: 243 LQHGTFDTKGGEFEWVHKPEMDTSRRRFFL 272
           LQHGTFDTKGGE+EWVHKPEMDTSRRRFFL
Sbjct: 332 LQHGTFDTKGGEYEWVHKPEMDTSRRRFFL 361

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242094590|ref|XP_002437785.1| hypothetical protein SORBIDRAFT_10g002530 [Sorghum bicolor] gi|241916008|gb|EER89152.1| hypothetical protein SORBIDRAFT_10g002530 [Sorghum bicolor]

 Score =  474 bits (1220), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 221/272 (81%), Positives = 245/272 (90%), Gaps = 1/272 (0%)

Query: 1   MTPRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAF 60
             PRTIENTREPDETVCRPDD ELFAGNDADEF+++LKQ   PKILITTCRFNS RGPAF
Sbjct: 92  QVPRTIENTREPDETVCRPDDQELFAGNDADEFNAVLKQHITPKILITTCRFNSGRGPAF 151

Query: 61  ISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTA 120
           I EL+ VIPNSHY KRGTY+LKKI++YAK +DFTS+IVVHTNRREPDALLIIGLPDGPTA
Sbjct: 152 IDELMQVIPNSHYVKRGTYELKKIVDYAKNRDFTSLIVVHTNRREPDALLIIGLPDGPTA 211

Query: 121 HFKLSKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVT 180
           HFKLSKLVLRKDIKNHGNPT H PELVLNNF TRLGHRVGR+IQSLFPQ P FRGRRVVT
Sbjct: 212 HFKLSKLVLRKDIKNHGNPTSHKPELVLNNFTTRLGHRVGRMIQSLFPQDPNFRGRRVVT 271

Query: 181 FHNQRDFIFFRHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKL 240
           FHNQRD+IFFRHHRYIF+TKE K +  + KKAK ++S+  S+++VI RLQECGPRF LKL
Sbjct: 272 FHNQRDYIFFRHHRYIFDTKEKKVASKD-KKAKTSESKSESEKQVICRLQECGPRFVLKL 330

Query: 241 VSLQHGTFDTKGGEFEWVHKPEMDTSRRRFFL 272
           ++LQHGTFDTK GE+EWVHKP+MDTSRRRFFL
Sbjct: 331 LTLQHGTFDTKSGEYEWVHKPDMDTSRRRFFL 362

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	272
TAIR|locus:2116992	343	MEE49 "AT4G01560" [Arabidopsis	0.952	0.755	0.797	1.9e-115
UNIPROTKB|A4FUG9	349	BXDC5 "Uncharacterized protein	0.764	0.595	0.507	4.7e-70
UNIPROTKB|E2RLN4	349	RPF1 "Uncharacterized protein"	0.764	0.595	0.507	7.7e-70
UNIPROTKB|Q9H9Y2	349	RPF1 "Ribosome production fact	0.764	0.595	0.507	9.8e-70
UNIPROTKB|Q5R631	349	RPF1 "Ribosome production fact	0.764	0.595	0.507	9.8e-70
UNIPROTKB|I3LN44	339	RPF1 "Uncharacterized protein"	0.764	0.613	0.502	2e-69
MGI|MGI:1917535	349	Rpf1 "ribosome production fact	0.764	0.595	0.497	3.3e-69
UNIPROTKB|F1NRK2	347	RPF1 "Uncharacterized protein"	0.764	0.599	0.502	9.8e-68
UNIPROTKB|Q8AVP1	343	rpf1 "Ribosome production fact	0.764	0.606	0.483	1.1e-66
ZFIN|ZDB-GENE-040625-177	352	rpf1 "ribosome production fact	0.764	0.590	0.483	9.8e-66

TAIR|locus:2116992 MEE49 "AT4G01560" [Arabidopsis thaliana (taxid:3702)]

 Score = 1138 (405.7 bits), Expect = 1.9e-115, P = 1.9e-115
 Identities = 217/272 (79%), Positives = 234/272 (86%)

Query:     1 MTPRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAF 60
             M P+TIENTRE DETVCRPDD+ELFA  DADEF+ +L++  APK+L+TTCRFNS RGPA 
Sbjct:    85 MIPKTIENTRESDETVCRPDDEELFADIDADEFNPVLRREIAPKVLLTTCRFNSTRGPAL 144

Query:    61 ISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTA 120
             ISELLSVIPNSHY KRGTYDLKKI+EYA KKDFTS+IVVHTNRREPDALLIIGLP+GPTA
Sbjct:   145 ISELLSVIPNSHYQKRGTYDLKKIVEYATKKDFTSLIVVHTNRREPDALLIIGLPNGPTA 204

Query:   121 HFKLSKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVT 180
             HFKLS LVLRKDIKNHGNPT H PELVLNNF TRLG+RVGR  QSLFP  P FRGRRVVT
Sbjct:   205 HFKLSNLVLRKDIKNHGNPTSHQPELVLNNFTTRLGNRVGRFFQSLFPPDPNFRGRRVVT 264

Query:   181 FHNQRDFIFFRHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKL 240
             FHNQRDFIFFRHHRYIFETKESK             S+K  ++ +  RLQECGPRFTLKL
Sbjct:   265 FHNQRDFIFFRHHRYIFETKESK-------------SDKGKEETIKPRLQECGPRFTLKL 311

Query:   241 VSLQHGTFDTKGGEFEWVHKPEMDTSRRRFFL 272
             V+LQHGTFDTKGGEFEWVHKPEMDTSRRRFFL
Sbjct:   312 VTLQHGTFDTKGGEFEWVHKPEMDTSRRRFFL 343

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0009793 "embryo development ending in seed dormancy" evidence=RCA;IMP

GO:0005829 "cytosol" evidence=IDA

GO:0006626 "protein targeting to mitochondrion" evidence=RCA

GO:0009640 "photomorphogenesis" evidence=RCA

GO:0009845 "seed germination" evidence=RCA

GO:0009909 "regulation of flower development" evidence=RCA

GO:0009933 "meristem structural organization" evidence=RCA

GO:0010162 "seed dormancy process" evidence=RCA

GO:0010182 "sugar mediated signaling pathway" evidence=RCA

GO:0010228 "vegetative to reproductive phase transition of meristem" evidence=RCA

GO:0010564 "regulation of cell cycle process" evidence=RCA

GO:0016567 "protein ubiquitination" evidence=RCA

GO:0019915 "lipid storage" evidence=RCA

GO:0048366 "leaf development" evidence=RCA

GO:0048825 "cotyledon development" evidence=RCA

GO:0050826 "response to freezing" evidence=RCA

GO:0051301 "cell division" evidence=RCA

UNIPROTKB|A4FUG9 BXDC5 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 546 (197.3 bits), Expect = 4.7e-70, Sum P(2) = 4.7e-70
 Identities = 107/211 (50%), Positives = 146/211 (69%)

Query:     3 PRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFIS 62
             P+TI+N R  DET+  P+D+E+      DEF+S   +  +PKILITT      R      
Sbjct:   102 PKTIDNQRVYDETIVDPNDEEVAYDEATDEFASYFNRQTSPKILITTSDRPHGRTVRLCE 161

Query:    63 ELLSVIPNSH-YYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAH 121
             +L +VIPNSH YY+RG   LKKII     +DFT +IV++ +R+ P+ L++  LP+GPTAH
Sbjct:   162 QLSTVIPNSHVYYRRGLA-LKKIIPQCISRDFTDLIVINEDRKIPNGLILSHLPNGPTAH 220

Query:   122 FKLSKLVLRKDIKNHG-NPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVT 180
             FK+S + LRK+IK  G +PT HIPE++LNNF TRLGH +GR+  SLFP +P+F GR+V T
Sbjct:   221 FKMSSVRLRKEIKRRGKDPTEHIPEIILNNFTTRLGHSIGRMFASLFPHNPQFIGRQVAT 280

Query:   181 FHNQRDFIFFRHHRYIFETKESKGSDANGKK 211
             FHNQRD+IFFR HRYIF++++  G    G +
Sbjct:   281 FHNQRDYIFFRFHRYIFKSEKKVGIQELGPR 311

GO:0005730 "nucleolus" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

UNIPROTKB|E2RLN4 RPF1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 544 (196.6 bits), Expect = 7.7e-70, Sum P(2) = 7.7e-70
 Identities = 107/211 (50%), Positives = 145/211 (68%)

Query:     3 PRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFIS 62
             P+TI+N R  DET+  P+D+E+      DEF+S   +  +PKILITT      R      
Sbjct:   102 PKTIDNQRVYDETIVDPNDEEVAYDEATDEFASYFNRQTSPKILITTSDRPHGRTVRLCE 161

Query:    63 ELLSVIPNSH-YYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAH 121
             +L +VIPNSH YY+RG   LKKII     +DFT +IV++ +R+ P+ L++  LP GPTAH
Sbjct:   162 QLSTVIPNSHVYYRRGLA-LKKIIPQCISRDFTDLIVINEDRKIPNGLILSHLPSGPTAH 220

Query:   122 FKLSKLVLRKDIKNHG-NPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVT 180
             FK+S + LRK+IK  G +PT HIPE++LNNF TRLGH +GR+  SLFP +P+F GR+V T
Sbjct:   221 FKMSSVRLRKEIKRRGKDPTEHIPEVILNNFTTRLGHSIGRMFASLFPHNPQFIGRQVAT 280

Query:   181 FHNQRDFIFFRHHRYIFETKESKGSDANGKK 211
             FHNQRD+IFFR HRYIF++++  G    G +
Sbjct:   281 FHNQRDYIFFRFHRYIFKSEKKVGIQELGPR 311

GO:0005730 "nucleolus" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

UNIPROTKB|Q9H9Y2 RPF1 "Ribosome production factor 1" [Homo sapiens (taxid:9606)]

 Score = 543 (196.2 bits), Expect = 9.8e-70, Sum P(2) = 9.8e-70
 Identities = 107/211 (50%), Positives = 144/211 (68%)

Query:     3 PRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFIS 62
             P+TI+N R  DET   P+D+E+      DEF+S   +  +PKILITT      R      
Sbjct:   102 PKTIDNQRVYDETTVDPNDEEVAYDEATDEFASYFNKQTSPKILITTSDRPHGRTVRLCE 161

Query:    63 ELLSVIPNSH-YYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAH 121
             +L +VIPNSH YY+RG   LKKII     +DFT +IV++ +R+ P+ L++  LP+GPTAH
Sbjct:   162 QLSTVIPNSHVYYRRGLA-LKKIIPQCIARDFTDLIVINEDRKTPNGLILSHLPNGPTAH 220

Query:   122 FKLSKLVLRKDIKNHG-NPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVT 180
             FK+S + LRK+IK  G +PT HIPE++LNNF TRLGH +GR+  SLFP +P+F GR+V T
Sbjct:   221 FKMSSVRLRKEIKRRGKDPTEHIPEIILNNFTTRLGHSIGRMFASLFPHNPQFIGRQVAT 280

Query:   181 FHNQRDFIFFRHHRYIFETKESKGSDANGKK 211
             FHNQRD+IFFR HRYIF +++  G    G +
Sbjct:   281 FHNQRDYIFFRFHRYIFRSEKKVGIQELGPR 311

GO:0006364 "rRNA processing" evidence=IEA

GO:0019843 "rRNA binding" evidence=IEA

GO:0005730 "nucleolus" evidence=IDA

GO:0003723 "RNA binding" evidence=IDA

UNIPROTKB|Q5R631 RPF1 "Ribosome production factor 1" [Pongo abelii (taxid:9601)]

 Score = 543 (196.2 bits), Expect = 9.8e-70, Sum P(2) = 9.8e-70
 Identities = 107/211 (50%), Positives = 144/211 (68%)

Query:     3 PRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFIS 62
             P+TI+N R  DET   P+D+E+      DEF+S   +  +PKILITT      R      
Sbjct:   102 PKTIDNQRVYDETTVDPNDEEVAYDEATDEFASYFNKQTSPKILITTSDRPHGRTVRLCE 161

Query:    63 ELLSVIPNSH-YYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAH 121
             +L +VIPNSH YY+RG   LKKII     +DFT +IV++ +R+ P+ L++  LP+GPTAH
Sbjct:   162 QLSTVIPNSHVYYRRGLA-LKKIIPQCIARDFTDLIVINEDRKTPNGLILSHLPNGPTAH 220

Query:   122 FKLSKLVLRKDIKNHG-NPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVT 180
             FK+S + LRK+IK  G +PT HIPE++LNNF TRLGH +GR+  SLFP +P+F GR+V T
Sbjct:   221 FKMSSVRLRKEIKRRGKDPTEHIPEIILNNFTTRLGHSIGRMFASLFPHNPQFIGRQVAT 280

Query:   181 FHNQRDFIFFRHHRYIFETKESKGSDANGKK 211
             FHNQRD+IFFR HRYIF +++  G    G +
Sbjct:   281 FHNQRDYIFFRFHRYIFRSEKKVGIQELGPR 311

GO:0003723 "RNA binding" evidence=ISS

GO:0005730 "nucleolus" evidence=ISS

UNIPROTKB|I3LN44 RPF1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 540 (195.1 bits), Expect = 2.0e-69, Sum P(2) = 2.0e-69
 Identities = 106/211 (50%), Positives = 144/211 (68%)

Query:     3 PRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFIS 62
             P+TI+N R  DET+  P+D+E+      DEF+S   +   PKILITT      R      
Sbjct:    92 PKTIDNQRVYDETIVDPNDEEVAYDEATDEFASYFNRQTCPKILITTSDRPHGRTVRLCE 151

Query:    63 ELLSVIPNSH-YYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAH 121
             +L +VIPNSH YY+RG   LKKII     +DFT +IV++ +R+ P+ L++  LP+GPTAH
Sbjct:   152 QLSTVIPNSHVYYRRGLA-LKKIIPQCISRDFTDLIVINEDRKIPNGLILSHLPNGPTAH 210

Query:   122 FKLSKLVLRKDIKNHG-NPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVT 180
             FK+S + LRK+IK  G +PT H PE++LNNF TRLGH +GR+  SLFP +P+F GR+V T
Sbjct:   211 FKMSSVRLRKEIKRRGKDPTEHTPEIILNNFTTRLGHSIGRMFASLFPHNPQFIGRQVAT 270

Query:   181 FHNQRDFIFFRHHRYIFETKESKGSDANGKK 211
             FHNQRD+IFFR HRYIF++++  G    G +
Sbjct:   271 FHNQRDYIFFRFHRYIFKSEKKVGIQELGPR 301

GO:0005730 "nucleolus" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

MGI|MGI:1917535 Rpf1 "ribosome production factor 1 homolog (S. cerevisiae)" [Mus musculus (taxid:10090)]

 Score = 538 (194.4 bits), Expect = 3.3e-69, Sum P(2) = 3.3e-69
 Identities = 105/211 (49%), Positives = 145/211 (68%)

Query:     3 PRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFIS 62
             P+TI+N R  DET   P+D+E+      DEF+S   +  +PKILITT      R      
Sbjct:   102 PKTIDNQRVYDETTVDPNDEEVAYDEATDEFASYFNRQTSPKILITTSDRPHGRTVRLCE 161

Query:    63 ELLSVIPNSH-YYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAH 121
             +L +VIP+SH YY+RG   LKKII     +DFT +IV++ +R+ P+ L++  LP+GPTAH
Sbjct:   162 QLSTVIPDSHVYYRRGLA-LKKIIPQCIARDFTDLIVINEDRKTPNGLILSHLPNGPTAH 220

Query:   122 FKLSKLVLRKDIKNHG-NPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVT 180
             FK+S + LRK+IK  G +PT H+PE++LNNF TRLGH +GR+  SLFP +P+F GR+V T
Sbjct:   221 FKMSSVRLRKEIKRRGKDPTEHVPEIILNNFTTRLGHSIGRMFASLFPHNPQFIGRQVAT 280

Query:   181 FHNQRDFIFFRHHRYIFETKESKGSDANGKK 211
             FHNQRD+IFFR HRYIF++++  G    G +
Sbjct:   281 FHNQRDYIFFRFHRYIFKSEKKVGIQELGPR 311

GO:0003723 "RNA binding" evidence=ISO

GO:0005634 "nucleus" evidence=IEA

GO:0005730 "nucleolus" evidence=ISO

GO:0006364 "rRNA processing" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0019843 "rRNA binding" evidence=IEA

GO:0042254 "ribosome biogenesis" evidence=IEA

UNIPROTKB|F1NRK2 RPF1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 534 (193.0 bits), Expect = 9.8e-68, Sum P(2) = 9.8e-68
 Identities = 106/211 (50%), Positives = 142/211 (67%)

Query:     3 PRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFIS 62
             P+TIEN R  DET   P+D+E+      DEF+    +   PKILITT      R   F  
Sbjct:   100 PKTIENQRIYDETTVDPNDEEVAFDIATDEFAPYFNRQTVPKILITTSDRPRGRTVRFCE 159

Query:    63 ELLSVIPNSH-YYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAH 121
             +L +VIPNSH YY+RG   LK+II     +DFT +IV++ +R+ P+ L++  LPDGPTAH
Sbjct:   160 QLSTVIPNSHVYYRRGLA-LKRIIPQCIARDFTDLIVINEDRKIPNGLVLSHLPDGPTAH 218

Query:   122 FKLSKLVLRKDIKNHGN-PTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVT 180
             F++S + LRK+IK  G  PT H+PE++LNNF TRLGH +GR+  SLFP  P+F GR+V T
Sbjct:   219 FRMSSVRLRKEIKRKGKEPTEHVPEVILNNFTTRLGHSIGRMFASLFPHDPQFIGRQVAT 278

Query:   181 FHNQRDFIFFRHHRYIFETKESKGSDANGKK 211
             FHNQRD+IFFR HRYIF++++  G    G +
Sbjct:   279 FHNQRDYIFFRFHRYIFKSEKKVGIQELGPR 309

GO:0003723 "RNA binding" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

UNIPROTKB|Q8AVP1 rpf1 "Ribosome production factor 1" [Xenopus laevis (taxid:8355)]

 Score = 523 (189.2 bits), Expect = 1.1e-66, Sum P(2) = 1.1e-66
 Identities = 102/211 (48%), Positives = 139/211 (65%)

Query:     3 PRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFIS 62
             P+TIEN R  DET   P D+E+      DEF+    +   PKILITT      R   F  
Sbjct:    96 PKTIENQRVYDETTVDPADEEVALDEATDEFAPYFNKQTTPKILITTSDRPRGRSVRFTE 155

Query:    63 ELLSVIPNSH-YYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAH 121
             +L S+IPNS  YY+RG   LKKII     +D+T ++V++ +R+ P+ L++  LPDGPTAH
Sbjct:   156 QLSSIIPNSDVYYRRGLA-LKKIIPQCVSRDYTDLLVINEDRKVPNGLVLCHLPDGPTAH 214

Query:   122 FKLSKLVLRKDIKNHGN-PTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVT 180
             FK+S + LRK++K  G  PT H PE++LNNF TRLGH +GR+  SL+P  P F GR+V T
Sbjct:   215 FKISNVRLRKEMKRKGKEPTEHKPEVILNNFTTRLGHSIGRMFASLYPHDPHFVGRQVAT 274

Query:   181 FHNQRDFIFFRHHRYIFETKESKGSDANGKK 211
             FHNQRD+IFFR+HRY+F++++  G    G +
Sbjct:   275 FHNQRDYIFFRYHRYLFKSEKKVGIQELGPR 305

GO:0003723 "RNA binding" evidence=ISS

GO:0005730 "nucleolus" evidence=ISS

ZFIN|ZDB-GENE-040625-177 rpf1 "ribosome production factor 1 homolog (S. cerevisiae)" [Danio rerio (taxid:7955)]

 Score = 521 (188.5 bits), Expect = 9.8e-66, Sum P(2) = 9.8e-66
 Identities = 102/211 (48%), Positives = 141/211 (66%)

Query:     3 PRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFIS 62
             P+TIEN R  DET   P+D+E+      DEFS+   +   PK+LITT      R   F  
Sbjct:   105 PKTIENQRIYDETTVNPEDEEVAFDEGTDEFSAYFNRLTNPKVLITTSDRPRGRTVRFCD 164

Query:    63 ELLSVIPNSH-YYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAH 121
             +L +VIP+++ YY+RG   LKK+I     + FT ++V++ +R+ P+ +++  LPDGPTAH
Sbjct:   165 QLATVIPHAYVYYRRGLA-LKKVIPQCISRGFTYLMVINEDRKVPNGMVLCHLPDGPTAH 223

Query:   122 FKLSKLVLRKDIKNHG-NPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVT 180
             FK+S + LRK++K  G NPT H PE++LNNF TRLGH +GRL  +LFP  P+F GR+V T
Sbjct:   224 FKVSSVRLRKEMKRRGKNPTEHSPEVILNNFTTRLGHSIGRLFAALFPHDPQFVGRQVAT 283

Query:   181 FHNQRDFIFFRHHRYIFETKESKGSDANGKK 211
             FHNQRDFIFFR HRYIF+ ++  G    G +
Sbjct:   284 FHNQRDFIFFRFHRYIFKNEKKVGIQELGPR 314

GO:0005730 "nucleolus" evidence=ISS

GO:0003723 "RNA binding" evidence=IEA;ISS

GO:0019843 "rRNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0042254 "ribosome biogenesis" evidence=IEA

GO:0006364 "rRNA processing" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q5R631	RPF1_PONAB	No assigned EC number	0.5091	0.9080	0.7077	yes	no
O14180	YDS4_SCHPO	No assigned EC number	0.4285	0.9264	0.8235	yes	no
Q9H9Y2	RPF1_HUMAN	No assigned EC number	0.5091	0.9080	0.7077	yes	no
Q7TND5	RPF1_MOUSE	No assigned EC number	0.5018	0.9080	0.7077	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	272
smart00879	180	smart00879, Brix, The Brix domain is found in a nu	2e-47
pfam04427	176	pfam04427, Brix, Brix domain	8e-42
COG2136	191	COG2136, IMP4, Predicted exosome subunit/U3 small	3e-36
COG5154	283	COG5154, BRX1, RNA-binding protein required for 60	0.004

>gnl|CDD|214879 smart00879, Brix, The Brix domain is found in a number of eukaryotic proteins

 Score =  155 bits (395), Expect = 2e-47
 Identities = 76/203 (37%), Positives = 100/203 (49%), Gaps = 33/203 (16%)

Query: 46  LITTCRFNSNRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVH--TNR 103
           LITT R  S R      +L  + P S    RG   L +++E+A +K  T ++VV   +++
Sbjct: 1   LITTSRKPSKRTRQLAKDLRRLFPPSTKINRGKNKLNELLEFASEKGNTDLLVVFESSSK 60

Query: 104 REPDALLIIGLPDGPTAHFKLSKLVLRKDIKN---HGNPTGHIPELVLNNFATRLGHRVG 160
             P  L I  LP+GPT  FK+  + LRK++K        TG  P L+ NNF T LG  + 
Sbjct: 61  GRPLNLTIYRLPNGPTLDFKILNVSLRKELKGFKTGNCLTGSRPLLIFNNFFTELGKLIK 120

Query: 161 RLIQSLFPQSPEFR-----GRRVVTFHNQRDFIFFRHHRYIFETKESKGSDANGKKAKDA 215
            L Q LFP  PE +      RRVVTF NQ D+IFFRH+R  F  K+ +            
Sbjct: 121 ELFQDLFPGPPEHKKSLPGLRRVVTFSNQDDYIFFRHYRIKFGKKKPR------------ 168

Query: 216 KSEKTSQQKVITRLQECGPRFTL 238
                        LQE GPRFTL
Sbjct: 169 -----------VELQEIGPRFTL 180

Members include SSF proteins from yeast and humans, Arabidopsis thaliana Peter Pan-like protein and several hypothetical proteins. Length = 180

>gnl|CDD|218084 pfam04427, Brix, Brix domain

 Score =  141 bits (357), Expect = 8e-42
 Identities = 75/205 (36%), Positives = 95/205 (46%), Gaps = 37/205 (18%)

Query: 47  ITTCRFNSNRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREP 106
           ITT R  S R      +L  + PN+    RG   LK ++E+A +K  TS++V     ++P
Sbjct: 1   ITTSRKPSKRLRQLAKDLRLLFPNAKKLNRGKKKLKDLLEFAGEKGDTSLLVFGE-HKKP 59

Query: 107 DALLIIGLPDGPTAHFKLSKLVLRKDIKNHG-NPTGHIPELVLNNFATR--LGHRVGRLI 163
             L I  LP+GPT  F++S + L KDIK  G    G  P LV N F         +  L+
Sbjct: 60  LNLTIGRLPNGPTLEFRISNVKLLKDIKGKGKGNKGSRPLLVFNGFFFTRLGLKLIKELL 119

Query: 164 QSLFPQ-----SPEFRGRRVVTFHNQRDFIFFRHHRYIFETKESKGSDANGKKAKDAKSE 218
           Q LFP       P   G RV+TF NQRD IFFRH+RY                       
Sbjct: 120 QDLFPGPNVHKIPLKGGDRVITFSNQRDTIFFRHYRY----------------------- 156

Query: 219 KTSQQKVITRLQECGPRFTLKLVSL 243
                K    LQE GPRFTLKL  +
Sbjct: 157 -----KKKVELQEIGPRFTLKLRRI 176

Length = 176

>gnl|CDD|225047 COG2136, IMP4, Predicted exosome subunit/U3 small nucleolar ribonucleoprotein (snoRNP) component, contains IMP4 domain [Translation, ribosomal structure and biogenesis / RNA processing and modification]

 Score =  127 bits (321), Expect = 3e-36
 Identities = 67/214 (31%), Positives = 98/214 (45%), Gaps = 32/214 (14%)

Query: 43  PKILITTCRFNSNRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTN 102
           PK+L+TT R  S R  +F  +L  V+PN+++ +RG   + ++ E A  +  T +++V   
Sbjct: 2   PKMLLTTSRKPSRRTRSFAKDLSRVLPNAYFLRRGKKSIIELSEEAIARGATDLLIVGER 61

Query: 103 RREPDALLIIGL-PDGPTAHFKLSKLVLRKDIKNHGN-PTGHIPELVLNNFATRLGH-RV 159
           R  P  L    L P+G T  FKLS + LR++I   G     H PEL+ NNF T LG  +V
Sbjct: 62  RGNPARLTFYDLEPEGLTFSFKLSGVKLRREIPVLGPKSRLHGPELIFNNFTTLLGFLKV 121

Query: 160 GRLIQSL----FPQSPEFRGRRVVTFHNQRDFIFFRHHRYIFETKESKGSDANGKKAKDA 215
                 L    F  +P +    V T  N+ DF   R HR +FE                 
Sbjct: 122 AEAFSELLLVKFVPNPAWEHELVATGANKGDFKSLRRHRRVFEEDG-------------- 167

Query: 216 KSEKTSQQKVITRLQECGPRFTLKLVSLQHGTFD 249
                        L+E GPR TL+L  ++ G  +
Sbjct: 168 -----------IGLEEVGPRLTLRLWRMEDGRGE 190

Length = 191

>gnl|CDD|227483 COG5154, BRX1, RNA-binding protein required for 60S ribosomal subunit biogenesis [Translation, ribosomal structure and biogenesis]

 Score = 37.7 bits (87), Expect = 0.004
 Identities = 48/220 (21%), Positives = 86/220 (39%), Gaps = 35/220 (15%)

Query: 44  KILITTCRFNSNRGPAFISELLSVIPNSHYYKRGTYDLKK----IIEYAKKKDFTSIIVV 99
             LI + R  S R    + +L  ++P  H  K    D+KK    + E A+  +  +++  
Sbjct: 32  TSLILSSRGVSYRIRHLMKDLSRLVP--HSKKEQKLDMKKNLGQLNELAELYNCNNMLFF 89

Query: 100 HTNRREPDALLIIGLPDGPTAHFKLSKLVLRKDIKNHGNP-TGHIPELVLNNFATRLGHR 158
            + +R    L+   +P+GPT  F++  L    ++   GN   G  P L  +     + H 
Sbjct: 90  ESRKRSDLYLMGARIPNGPTVKFRMHNLHTMDELNFTGNSLKGSRPVLSFDKEFEDIPHL 149

Query: 159 --VGRLIQSLFPQSPEFRGR-----RVVTFHNQRDFIFFRHHRYIFETKESKGSDANGKK 211
                L++ +F      R       +V+ F      I+ R +         +    N  K
Sbjct: 150 KYAKELLEHIFGIPKGARRSKPFIDKVLCFFILDGKIWVRCY---------EIGRENEDK 200

Query: 212 AKDAKSEKTSQQKVITRLQECGPRFTLKLVSLQHGTFDTK 251
           +KD K            L+E GPRF + ++ +  G+F   
Sbjct: 201 SKDVK------------LEEIGPRFVMTVIKILEGSFGGP 228

Length = 283

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	272
KOG2780	302	consensus Ribosome biogenesis protein RPF1, contai	100.0
KOG2781	290	consensus U3 small nucleolar ribonucleoprotein (sn	100.0
KOG2963	405	consensus RNA-binding protein required for 60S rib	100.0
KOG2971	299	consensus RNA-binding protein required for biogene	100.0
PF04427	191	Brix: Brix domain; InterPro: IPR007109 The Brix do	100.0
smart00879	180	Brix Brix domain. The Brix domain is found in a nu	100.0
COG5154	283	BRX1 RNA-binding protein required for 60S ribosoma	100.0
COG2136	191	IMP4 Predicted exosome subunit/U3 small nucleolar	100.0
PRK03972	208	ribosomal biogenesis protein; Validated	99.95
PRK00933	165	ribosomal biogenesis protein; Validated	99.26
KOG3031	307	consensus Protein required for biogenesis of the r	98.95
COG5106	316	RPF2 Uncharacterized conserved protein [Function u	97.27
PRK03972	208	ribosomal biogenesis protein; Validated	94.24

>KOG2780 consensus Ribosome biogenesis protein RPF1, contains IMP4 domain [RNA processing and modification]

Probab=100.00  E-value=1.8e-74  Score=507.19  Aligned_cols=248  Identities=60%  Similarity=0.973  Sum_probs=241.4

Q ss_pred             CCccccccccCCCccccCCCChhhhcCCCcchhhhhhcCCCCCeEEEEcCCCCCCcHHHHHHHHhhcCCCceecccCCcc
Q 024088            1 MTPRTIENTREPDETVCRPDDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFISELLSVIPNSHYYKRGTYD   80 (272)
Q Consensus         1 ~~p~t~~~~r~~~~t~~~~~~~~~~~~~~~de~~~~~~~~~~pkiLIttSr~ps~~~r~f~kdL~~l~Pns~~~~R~k~~   80 (272)
                      ++|+|||++|++|+|+|.++||||++|+++|||+.||+.+..||+|||++.+|+.++..||.+|+.++|||....|++..
T Consensus        55 ~vp~TIe~~R~yDeT~v~~~deEl~~d~~~deF~~~~~~~~spKvlITt~~~~~~~t~~~~~eL~~iiPNs~~~~R~~~~  134 (302)
T KOG2780|consen   55 NVPKTIESTRVYDETIVEEEDEELQADLADDEFSPYFRREFSPKVLITTSKNPKRTTYKFASELLDIIPNSTVKKRDNYT  134 (302)
T ss_pred             CCcchhhhhhhccccccCCCcHHHhhhhhhhhhHHHHhcccCccEEEEcCCCCcccHHHHHHHHHHhCCCceEEecCCch
Confidence            48999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhHhCCCCEEEEEEEcCCCCCeEEEEeCCCCceEEEEEcceeehhhhccCCCCCCCCcEEEccCCCCchhhHHH
Q 024088           81 LKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAHFKLSKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVG  160 (272)
Q Consensus        81 lkdl~~~a~~~g~t~lii~~e~~~~p~~L~I~~lP~GPT~~F~I~n~~l~~di~~~~~~~~~~P~LilnnF~t~~g~~i~  160 (272)
                      ++.++++|...++|+++|++++++.|..|.|+|+|+|||++|++++|.+.+||..+|++++|.|+||+|||+|++|+.|+
T Consensus       135 vk~i~~~a~~~eftdlvvV~edRkk~n~L~iihlP~GPT~~Fkls~~~~~kdi~k~g~~t~h~PElIlNNFtTrlG~~v~  214 (302)
T KOG2780|consen  135 VKSIVEIAIKREFTDLVVVNEDRKKPNGLKIIHLPNGPTAYFKLSNVVLTKDIKKHGRPTSHIPELILNNFTTRLGMTVG  214 (302)
T ss_pred             HHHHHHHHHHhcCCceEEEecCcCCccceEEEecCCCCceEEEeecccchhhhhhcCCcccccchhhhhcccchhhHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhCCCCCCCCCCeEEEEEecCCeEEEEeeeeEEeeccCCCCCCCCCcccchhhhhccccccceeeeeecceeEEEE
Q 024088          161 RLIQSLFPQSPEFRGRRVVTFHNQRDFIFFRHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKL  240 (272)
Q Consensus       161 ~~l~~lFp~~p~~~~rRVv~f~~~~d~I~fRhY~y~i~~~~~~~~~~~~~~~~d~~~~~~~~~~i~v~L~EIGPR~tL~L  240 (272)
                      +||++|||.+|++.+||||+||+|+|+||||||||.|..++.+                       +.|+|+||||||+|
T Consensus       215 r~f~sLfp~~p~f~gRrvvtFhnQrD~IfFRhhRY~Fkee~~k-----------------------vglqElGPrfTLrL  271 (302)
T KOG2780|consen  215 RLFASLFPHDPQFTGRRVVTFHNQRDYIFFRHHRYEFKEEEIK-----------------------VGLQELGPRFTLRL  271 (302)
T ss_pred             HHHHHhCCCCccccceeEEEEEecCceEEEEEEEEeecccccc-----------------------cchhhcCCceeeee
Confidence            9999999999999999999999999999999999999865543                       59999999999999


Q ss_pred             EEEecCcCCCCcceEEEEeCCCCCcccccccC
Q 024088          241 VSLQHGTFDTKGGEFEWVHKPEMDTSRRRFFL  272 (272)
Q Consensus       241 ~kI~~G~f~g~~~~~~~v~k~~~~~~r~~~~l  272 (272)
                      .++++|+|+.+.|+++|+.+. |+++|++|||
T Consensus       272 ~~lq~G~fd~K~ge~~~~~~~-~~tsrr~f~L  302 (302)
T KOG2780|consen  272 RRLQKGTFDEKEGEFEWVHKK-METSRRKFFL  302 (302)
T ss_pred             hhhhhccccccceeeeeeecc-cccchhcccC
Confidence            999999999999999999999 9999999998

>KOG2781 consensus U3 small nucleolar ribonucleoprotein (snoRNP) component [RNA processing and modification]

Probab=100.00  E-value=4.5e-57  Score=392.92  Aligned_cols=219  Identities=41%  Similarity=0.714  Sum_probs=204.3

Q ss_pred             CCCcchhhhhhcCCCCCeEEEEcCCCCCCcHHHHHHHHhhcCCCceecccCCccHHHHHHHhHhCCCCEEEEEEEcCCCC
Q 024088           27 GNDADEFSSILKQGCAPKILITTCRFNSNRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREP  106 (272)
Q Consensus        27 ~~~~de~~~~~~~~~~pkiLIttSr~ps~~~r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~g~t~lii~~e~~~~p  106 (272)
                      -.-+|||+.  .|...|||+|||||+||+++.+|+|+|+.+|||++..+||+..+.++++.|..+|+|++||++|++|.|
T Consensus        69 ~~vddEy~~--ag~~dPKimvTTSR~PSsrL~~FaKelkLvfPNaqr~nRG~~~~~~lv~a~ra~~~Td~iivHEhRG~P  146 (290)
T KOG2781|consen   69 SHVDDEYRW--AGEEDPKIMVTTSRDPSSRLKMFAKELKLVFPNAQRLNRGNYVVGELVDAARANGVTDLIIVHEHRGIP  146 (290)
T ss_pred             ccccHHHHh--ccCCCCcEEEEeCCCchHHHHHHHHhheEeccChhhhcccceeHHHHHHHHHHCCCceEEEEeccCCCC
Confidence            356788883  799999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CeEEEEeCCCCceEEEEEcceeehhhhccCCCCCCCCcEEEccCCCCchhhHHHHHHHhhCCCCCCCCCCeEEEEEecCC
Q 024088          107 DALLIIGLPDGPTAHFKLSKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVTFHNQRD  186 (272)
Q Consensus       107 ~~L~I~~lP~GPT~~F~I~n~~l~~di~~~~~~~~~~P~LilnnF~t~~g~~i~~~l~~lFp~~p~~~~rRVv~f~~~~d  186 (272)
                      ++|.|||+|.|||++|.|.|+.+++||+..|+++..+|+||||||++.+|++++.+|..|||. |+..++|||+|.|++|
T Consensus       147 dgL~vshlPfGPTa~Fsl~nvVmRhdip~~G~msE~~phlIfdNf~t~lG~Rv~~iLkhLFP~-pk~ds~Rvvtf~N~~D  225 (290)
T KOG2781|consen  147 DGLVVSHLPFGPTAFFSLHNVVMRHDIPDIGTMSEQKPHLIFDNFTTKLGKRVKTILKHLFPV-PKDDSKRVVTFANRND  225 (290)
T ss_pred             CceEEEecCCCCceEeeeeeeeecccccccccccccCceEEeccccchHHHHHHHHHHHhCCC-CcCCcccEEEEecCCc
Confidence            999999999999999999999999999999999899999999999999999999999999995 8888999999999999


Q ss_pred             eEEEEeeeeEEeeccCCCCCCCCCcccchhhhhccccccceeeeeecceeEEEEEEEecCcCCCCcceEEEEeCCCCCcc
Q 024088          187 FIFFRHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKLVSLQHGTFDTKGGEFEWVHKPEMDTS  266 (272)
Q Consensus       187 ~I~fRhY~y~i~~~~~~~~~~~~~~~~d~~~~~~~~~~i~v~L~EIGPR~tL~L~kI~~G~f~g~~~~~~~v~k~~~~~~  266 (272)
                      +|.||||.|.-.  +.+                    .  +.|.|+||||.|+|+.|..|+++...++.||++||+|+|+
T Consensus       226 yIsFRhhvy~~~--~~k--------------------~--vel~evGPRfelklyeIrlGTlE~~~ad~EW~~rpY~nTa  281 (290)
T KOG2781|consen  226 YISFRHHVYKKT--DGK--------------------E--VELTEVGPRFELKLYEIRLGTLEIKDADVEWVLRPYMNTA  281 (290)
T ss_pred             eEEEEEEEEecC--CCc--------------------e--EEEeeccccceeeeeeeeecceeccccceeEEecchhcch
Confidence            999999965432  211                    1  5899999999999999999999988899999999999999


Q ss_pred             cccccC
Q 024088          267 RRRFFL  272 (272)
Q Consensus       267 r~~~~l  272 (272)
                      ||+-+|
T Consensus       282 ~kR~~l  287 (290)
T KOG2781|consen  282 RKRDFL  287 (290)
T ss_pred             hhhhhh
Confidence            998654

>KOG2963 consensus RNA-binding protein required for 60S ribosomal subunit biogenesis [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=1.8e-49  Score=359.86  Aligned_cols=220  Identities=24%  Similarity=0.317  Sum_probs=187.5

Q ss_pred             CCCeEEEEcCCCCCCcHHHHHHHHhhcC-CCce--ecccCCccHHHHHHHhHhCCCCEEEEEEEcCCCCCeEEEEeCCCC
Q 024088           41 CAPKILITTCRFNSNRGPAFISELLSVI-PNSH--YYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDG  117 (272)
Q Consensus        41 ~~pkiLIttSr~ps~~~r~f~kdL~~l~-Pns~--~~~R~k~~lkdl~~~a~~~g~t~lii~~e~~~~p~~L~I~~lP~G  117 (272)
                      +.|.++|.+++-....+++|..|||++| ||+.  +..|++|+|||++.+|+.+|+|||++|+.+.. ..+|+|+++|.|
T Consensus        24 ~~ph~~v~~rgla~~~~~~L~~DlR~iMeP~TA~~LkerK~N~iKDfv~~~gplGVTH~l~lskt~~-nlslki~R~PqG  102 (405)
T KOG2963|consen   24 KSPHIRVGHRGLAGRSLKQLTLDLRRIMEPHTASNLKERKRNKLKDFVVMSGPLGVTHLLMLSKTET-NLSLKIARTPQG  102 (405)
T ss_pred             cCceEEEEecccccccHHHHHHHHHHhhCcchhhHHHHHhhhhhhhHHhhcccccceEEEEEecccC-ceeEEEEecCCC
Confidence            5799999999999999999999999999 9985  56889999999999999999999999999987 479999999999


Q ss_pred             ceEEEEEcceeehhhhccCCC-------CCCCCcEEEccCCCCc---hhhHHHHHHHhhCCC-CCC----CCCCeEEEEE
Q 024088          118 PTAHFKLSKLVLRKDIKNHGN-------PTGHIPELVLNNFATR---LGHRVGRLIQSLFPQ-SPE----FRGRRVVTFH  182 (272)
Q Consensus       118 PT~~F~I~n~~l~~di~~~~~-------~~~~~P~LilnnF~t~---~g~~i~~~l~~lFp~-~p~----~~~rRVv~f~  182 (272)
                      ||++|+|..|+|.+|+....+       .+.++|+||||||++.   +.++++.|||+|||+ |+.    .+++||++++
T Consensus       103 PTLtFkV~qYsLardV~~~qkrp~~~~~~Fk~pPLlVmNgFg~~~~~HlkL~~t~FQNmFPsInv~tvnlntikRcllin  182 (405)
T KOG2963|consen  103 PTLTFKVHQYSLARDVVSLQKRPKSPNDLFKSPPLLVLNGFGTSGRKHLKLMTTMFQNMFPSINVATVNLNTIKRCLLIN  182 (405)
T ss_pred             CceEEEeeehhhHHHHHHHHhCCCCchhhccCCCEEEEccCCCCcchhHHHHHHHHHHcCCCcCcceeeccceeEEEEEe
Confidence            999999999999999987532       2689999999999964   567999999999999 776    4899999999


Q ss_pred             e--cCCeEEEEeeeeEEeeccCCCCC---------------CCCCcccc------------hhhh---------------
Q 024088          183 N--QRDFIFFRHHRYIFETKESKGSD---------------ANGKKAKD------------AKSE---------------  218 (272)
Q Consensus       183 ~--~~d~I~fRhY~y~i~~~~~~~~~---------------~~~~~~~d------------~~~~---------------  218 (272)
                      |  +++.|.||||  .|+..+++.+.               ||++++.|            +|+|               
T Consensus       183 yn~dt~eIdmRHy--sI~vvpVGisR~vkkl~k~~~~~~~iPnL~~~~DISd~vl~~g~~~seSE~e~d~~~~i~~~~~~  260 (405)
T KOG2963|consen  183 YNRDTGEIDMRHY--SIRVVPVGISRNVKKLVKAKKNLSTIPNLHRLQDISDLVLKGGLYASESEIEDDATVRIVDNQDV  260 (405)
T ss_pred             cCCCCCeeeeeee--EEEEEecccchHHHHHHhhhcccCCCCCchhhhhHHHHhcCCcccccccccccccceEEeccccc
Confidence            8  4889999999  66665555311               45543332            1111               


Q ss_pred             ----------------hccccccceeeeeecceeEEEEEEEecCcCCCCcceEEEEeCCCCCc
Q 024088          219 ----------------KTSQQKVITRLQECGPRFTLKLVSLQHGTFDTKGGEFEWVHKPEMDT  265 (272)
Q Consensus       219 ----------------~~~~~~i~v~L~EIGPR~tL~L~kI~~G~f~g~~~~~~~v~k~~~~~  265 (272)
                                      ..++++  |+|+||||||||+|+||++|.|+|+|+||+||.||..|.
T Consensus       261 ~~eveL~q~~~s~g~~~~qksa--ikL~EIGPRlTlqLvKIeEGi~~GkVlyH~hv~Kt~eEi  321 (405)
T KOG2963|consen  261 KEEVELPQPKASRGNQPPQKSA--IKLTEIGPRLTLQLVKIEEGICEGKVLYHEHVQKTEEEI  321 (405)
T ss_pred             hhhhhccccccccCCCcccccc--eeeEeecccceEEEEEeeccccccceEEeehhcCCHHHH
Confidence                            134566  499999999999999999999999999999999998664

>KOG2971 consensus RNA-binding protein required for biogenesis of the ribosomal 60S subunit [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=6.2e-42  Score=299.33  Aligned_cols=188  Identities=23%  Similarity=0.342  Sum_probs=170.2

Q ss_pred             CCCeEEEEcCCCCCCcHHHHHHHHhhcCCCceeccc--CCccHHHHHHHhHhCCCCEEEEEEEcCCCCCeEEEEeCCCCc
Q 024088           41 CAPKILITTCRFNSNRGPAFISELLSVIPNSHYYKR--GTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGP  118 (272)
Q Consensus        41 ~~pkiLIttSr~ps~~~r~f~kdL~~l~Pns~~~~R--~k~~lkdl~~~a~~~g~t~lii~~e~~~~p~~L~I~~lP~GP  118 (272)
                      ++.|+||++||+.|-++|+||+||..++||++...+  .+.++..|.++|...+|+.+++|..++....|||+++.|+||
T Consensus        48 NK~rvlv~ssRgis~R~RhLm~di~~Llph~k~dsk~d~~k~l~~lnel~elkncn~~lfFesrkr~DlYlWm~~~p~Gp  127 (299)
T KOG2971|consen   48 NKERVLVLSSRGISFRTRHLMKDISSLLPHSKKDSKLDRKKKLGVLNELAELKNCNSCLFFESRKRKDLYLWMSNSPNGP  127 (299)
T ss_pred             cceeEEEEecCCchHHHHHHHHHHHHhcccccccchhhhcchHHHHHHHHHHhcCCeEEEEEeeccCceeEEEecCCCCC
Confidence            589999999999999999999999999999987655  477899999999999999999999988888899999999999


Q ss_pred             eEEEEEcceeehhhhccCCCCC-CCCcEEEcc-CCCC-chhhHHHHHHHhhCCCCCC------CCCCeEEEEEecCCeEE
Q 024088          119 TAHFKLSKLVLRKDIKNHGNPT-GHIPELVLN-NFAT-RLGHRVGRLIQSLFPQSPE------FRGRRVVTFHNQRDFIF  189 (272)
Q Consensus       119 T~~F~I~n~~l~~di~~~~~~~-~~~P~Liln-nF~t-~~g~~i~~~l~~lFp~~p~------~~~rRVv~f~~~~d~I~  189 (272)
                      |+.|.|+|+++|+|++.+|||. +++|+|.|+ +|++ ++.++++++|.+.|+. |.      ...++|++|++.+|.||
T Consensus       128 SvkFlv~n~hTM~ElkmtgN~lkgsrplLsFd~~Fd~~pHlkl~Kell~q~fgi-P~~hrkSkpf~Dhvf~Fsi~D~~IW  206 (299)
T KOG2971|consen  128 SVKFLVHNVHTMAELKMTGNCLKGSRPLLSFDKAFDELPHLKLLKELLEQIFGI-PKHHRKSKPFVDHVFTFSILDGKIW  206 (299)
T ss_pred             ceEEehhhhhhHHHhCCccccccCCcceeecccccccchHHHHHHHHHHHHcCC-CCCCcccCCccceEEEEEEecCeEE
Confidence            9999999999999999999996 689999997 7986 7889999999999965 22      36799999999999999


Q ss_pred             EEeeeeEEeeccCCCCCCCCCcccchhhhhccccccceeeeeecceeEEEEEEEecCcCCCCcceE
Q 024088          190 FRHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKLVSLQHGTFDTKGGEF  255 (272)
Q Consensus       190 fRhY~y~i~~~~~~~~~~~~~~~~d~~~~~~~~~~i~v~L~EIGPR~tL~L~kI~~G~f~g~~~~~  255 (272)
                      ||+|  +|+..+.                        ++|+||||||+|.+++|.+|+|+|.++|-
T Consensus       207 fRny--qI~~~ed------------------------~~L~EiGPRfvl~~ikif~gsFgG~~lYe  246 (299)
T KOG2971|consen  207 FRNY--QISEEED------------------------KTLIEIGPRFVLNVIKIFEGSFGGPTLYE  246 (299)
T ss_pred             EEEe--EeccccC------------------------cceeeeccHHHHhHHHHHhccCCCceeec
Confidence            9999  7863222                        38999999999999999999999998863

>PF04427 Brix: Brix domain; InterPro: IPR007109 The Brix domain is found in a number of eukaryotic proteins including some from Saccharomyces cerevisiae and Homo sapiens, Arabidopsis thaliana Peter Pan-like protein and several hypothetical proteins

Probab=100.00  E-value=7.2e-41  Score=288.65  Aligned_cols=179  Identities=40%  Similarity=0.606  Sum_probs=80.3

Q ss_pred             EEcCCCCCCcHHHHHHHHhhcC-CCceecccCCc-cHHHHHHHhHhCCCCEEEEEEEcCCCCCeEEEEeCCCCceEEEEE
Q 024088           47 ITTCRFNSNRGPAFISELLSVI-PNSHYYKRGTY-DLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAHFKL  124 (272)
Q Consensus        47 IttSr~ps~~~r~f~kdL~~l~-Pns~~~~R~k~-~lkdl~~~a~~~g~t~lii~~e~~~~p~~L~I~~lP~GPT~~F~I  124 (272)
                      ||||+++|+++++|++||+.++ ||+.+.+|++. .++|++++|..++|+++++|++++++|.+|||+++|+|||++|+|
T Consensus         1 i~ts~~~s~~~~~l~~DL~~l~~p~s~~~~r~~~~~l~~~~~~~~~~~~~~l~~~~~~~k~p~~L~i~r~~~gptl~f~I   80 (191)
T PF04427_consen    1 ITTSRKPSKRLRQLMKDLRSLFPPNSKKLNRKKKNSLKDLLEFAKQKNCTSLFVFGEHKKNPNNLWIGRLPNGPTLEFSI   80 (191)
T ss_dssp             -EESSS--HHHHHHHHHHHTTS-TTEEE---TT---HHHHHHHHHHTTEEEEEEEEEETTEEEEEEEEE-SS--EEEEEE
T ss_pred             cCCCCCCCHHHHHHHHHHHHHcCCCeEEEeCCCCCchHHHHHHHHHCCCCEEEEEEEeCCCcceEEEEecCCCCCEEEEE
Confidence            7899999999999999999999 99999999877 999999999999999999999999989999999999999999999


Q ss_pred             cceeehhhhccCCC-CCCCCcEEEccCCCCch---hhHHHHHHHhhCCC-CC----CCCCCeEEEEEecCCe-EEEEeee
Q 024088          125 SKLVLRKDIKNHGN-PTGHIPELVLNNFATRL---GHRVGRLIQSLFPQ-SP----EFRGRRVVTFHNQRDF-IFFRHHR  194 (272)
Q Consensus       125 ~n~~l~~di~~~~~-~~~~~P~LilnnF~t~~---g~~i~~~l~~lFp~-~p----~~~~rRVv~f~~~~d~-I~fRhY~  194 (272)
                      .+|.+++|+++... ..+++|+|||+||..+.   +.+++++|++|||. ++    ...+|||++|++++|. |||||| 
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~P~lif~g~~~~~~~~~~~ik~~l~~lF~~~~~~~~~~~~~~rvi~f~~~~d~~I~fR~Y-  159 (191)
T PF04427_consen   81 ENYKLMKDIKSSSKRPKGSRPLLIFNGFFFELDPELKLIKELLQDLFPGPNVDSIPLPGIDRVISFSNQRDFVIFFRHY-  159 (191)
T ss_dssp             EEEE-HHHHT-------S---EEEEE------------------------------------------------------
T ss_pred             EeEEEhhHhcccccCCCCCCeEEEEEecccccccccccccccccccccccccccccccccccccccccccccccccccc-
Confidence            99999999986544 34788999999998765   89999999999998 22    2478999999999888 999999 


Q ss_pred             eEEeeccCCCCCCCCCcccchhhhhccccccceeeeeecceeEEEEEEE
Q 024088          195 YIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKLVSL  243 (272)
Q Consensus       195 y~i~~~~~~~~~~~~~~~~d~~~~~~~~~~i~v~L~EIGPR~tL~L~kI  243 (272)
                      . ........                .+....++|+||||||+|+|+||
T Consensus       160 i-~~~~~~~~----------------~~~~~~v~L~EiGPr~~l~l~kI  191 (191)
T PF04427_consen  160 I-FKSGSKNP----------------KKLLPRVELVEIGPRFTLKLRKI  191 (191)
T ss_dssp             -------------------------------------------------
T ss_pred             c-cccccccc----------------cccccccccccccccccccccCC
Confidence            3 21111000                00002259999999999999987

There are six (one archaean and five eukaryotic) protein families which have a similar domain architecture with a central globular Brix domain. They have an optional N- and obligatory C-terminal segments, which both have charged low-complexity regions []. Proteins from the Imp4/Brix superfamily appear to be involved in ribosomal RNA processing, which essential for the functioning of all cells. The N- and C-terminal halves of a member of the superfamily, Mil, show significant structural similarity to one another. This suggests an origin by means of an ancestral duplication. Both halves have the same fold as the anticodon-binding domain of class IIa aminoacyl-tRNA synthetases, with greater conservation seen in the N-terminal half. Structural evidence suggests that the Imp4/Brix superfamily proteins could bind single-stranded segments of RNA along a concave surface formed by the N-terminal half of their beta-sheet and a central alpha-helix [].; PDB: 2CXH_A.

>smart00879 Brix Brix domain

Probab=100.00  E-value=3.7e-37  Score=262.12  Aligned_cols=170  Identities=46%  Similarity=0.716  Sum_probs=147.3

Q ss_pred             EEEcCCCCCCcHHHHHHHHhhcCCCceecccCCccHHHHHHHhHhCCCCEEEEEEEc--CCCCCeEEEEeCCCCceEEEE
Q 024088           46 LITTCRFNSNRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTN--RREPDALLIIGLPDGPTAHFK  123 (272)
Q Consensus        46 LIttSr~ps~~~r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~g~t~lii~~e~--~~~p~~L~I~~lP~GPT~~F~  123 (272)
                      |||+||+||+++++|++||+.++|++.+..|+++.+++++++|...+.++.+++.+.  +++|.+|||+++|.|||++|.
T Consensus         1 lit~sr~~s~~~r~~~~dL~~~~~~~~~~~r~~~~~~~~~e~~~~~~~~~~i~v~e~~~k~~p~~L~i~~~~~gp~l~f~   80 (180)
T smart00879        1 LITTSRKPSKRTRQLAKDLRRLFPPSTKINRGKNKLNELLEFASEKGNTDLLVVFESSSKGRPLNLTIYRLPNGPTLDFK   80 (180)
T ss_pred             CEEcCCCCCHHHHHHHHHHHHHCCCcEeecccCccHHHHHHHHHHcCCccEEEEecccCCCCCceEEEEECCCCCcEEEE
Confidence            689999999999999999999999999999999999999999998855555555666  788999999999999999999


Q ss_pred             Ecceeehhhhcc--CCCC-CCCCcEEEccCCCCchhhHHHHHHHhhCCCCCCC-----CCCeEEEEEecCCeEEEEeeee
Q 024088          124 LSKLVLRKDIKN--HGNP-TGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEF-----RGRRVVTFHNQRDFIFFRHHRY  195 (272)
Q Consensus       124 I~n~~l~~di~~--~~~~-~~~~P~LilnnF~t~~g~~i~~~l~~lFp~~p~~-----~~rRVv~f~~~~d~I~fRhY~y  195 (272)
                      +.++.+.+|+..  .+++ .+++|+|||+||..+.+++++.+|+.|||..+..     ..+|||+|++++|.||||||+|
T Consensus        81 i~~v~~~~~~~~~~~~~~~~~~~P~li~~~~~~~~~~~~k~~l~~~F~~~~~~~~~~~~~~rvi~f~~~~~~I~~R~y~i  160 (180)
T smart00879       81 ILNVSLRKELKGFKTGNCLTGSRPLLIFNNFFTELGKLIKELFQDLFPGPPEHKKSLPGLRRVVTFSNQDDYIFFRHYRI  160 (180)
T ss_pred             EECcccHhhhhhhhcCCCcCCCccEEEECCCCCchHHHHHHHHHHHCCCCCccccccCCCCEEEEEEecCCEEEEEEEEE
Confidence            999999999987  3444 5789999999999999999999999999983322     5899999999999999999966


Q ss_pred             EEeeccCCCCCCCCCcccchhhhhccccccceeeeeecceeEE
Q 024088          196 IFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTL  238 (272)
Q Consensus       196 ~i~~~~~~~~~~~~~~~~d~~~~~~~~~~i~v~L~EIGPR~tL  238 (272)
                      .+.....                       +++|+||||||+|
T Consensus       161 ~~~~~~~-----------------------~v~l~eiGPr~~l  180 (180)
T smart00879      161 KFGKKKP-----------------------RVELQEIGPRFTL  180 (180)
T ss_pred             EccCCCC-----------------------ceEEEEecCCccC
Confidence            5411111                       2599999999986

The Brix domain is found in a number of eukaryotic proteins including SSF proteins from yeast and humans, Arabidopsis thaliana Peter Pan-like protein and several hypothetical proteins.

>COG5154 BRX1 RNA-binding protein required for 60S ribosomal subunit biogenesis [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=1.3e-37  Score=266.13  Aligned_cols=194  Identities=20%  Similarity=0.316  Sum_probs=169.8

Q ss_pred             CCCeEEEEcCCCCCCcHHHHHHHHhhcCCCceeccc--CCccHHHHHHHhHhCCCCEEEEEEEcCCCCCeEEEEeCCCCc
Q 024088           41 CAPKILITTCRFNSNRGPAFISELLSVIPNSHYYKR--GTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGP  118 (272)
Q Consensus        41 ~~pkiLIttSr~ps~~~r~f~kdL~~l~Pns~~~~R--~k~~lkdl~~~a~~~g~t~lii~~e~~~~p~~L~I~~lP~GP  118 (272)
                      .++++||++||++|-+.|||++||..++|||+...+  -+..+.++.++|..++|+++++|..++....|||+++.|+||
T Consensus        29 ~kq~~lilSsRGvsyr~RHL~~Dls~l~phskke~KlD~kk~l~qLnelaelynCnn~lFFesrkr~Dlyl~~ar~pnGp  108 (283)
T COG5154          29 PKQTSLILSSRGVSYRIRHLMKDLSRLVPHSKKEQKLDMKKNLGQLNELAELYNCNNMLFFESRKRSDLYLMGARIPNGP  108 (283)
T ss_pred             ccceEEEEecCCchHHHHHHHHHHHHhCcccccccccchhhhHHHHHHHHHHhcCCceEEEeecccccceeeeccCCCCC
Confidence            488999999999999999999999999999987655  377899999999999999999998888878899999999999


Q ss_pred             eEEEEEcceeehhhhccCCCCC-CCCcEEEcc-CCCC-chhhHHHHHHHhhCCC--CC---CCCCCeEEEEEecCCeEEE
Q 024088          119 TAHFKLSKLVLRKDIKNHGNPT-GHIPELVLN-NFAT-RLGHRVGRLIQSLFPQ--SP---EFRGRRVVTFHNQRDFIFF  190 (272)
Q Consensus       119 T~~F~I~n~~l~~di~~~~~~~-~~~P~Liln-nF~t-~~g~~i~~~l~~lFp~--~p---~~~~rRVv~f~~~~d~I~f  190 (272)
                      |+.|+++|.++|.|+...||+. +++|.|.|+ .|.+ ++.+.++++|++.|..  +.   +...++|++|.+.+|.||+
T Consensus       109 tvkF~~~NlhTMdelNftgN~lKgsrpvLsFdk~Fe~~pHlk~~Kell~h~F~ip~~arrSkpfiD~v~~f~i~DgkIWv  188 (283)
T COG5154         109 TVKFRMHNLHTMDELNFTGNSLKGSRPVLSFDKEFEDIPHLKYAKELLEHIFGIPKGARRSKPFIDKVLCFFILDGKIWV  188 (283)
T ss_pred             eEEEEEeccchHhhcCCccccccCCcceEeeccccccchHHHHHHHHHHHhccCCCcccccccchhheEEEEEecCeEEE
Confidence            9999999999999999999986 589999998 6876 7889999999999965  21   1368999999999999999


Q ss_pred             EeeeeEEeeccCCCCCCCCCcccchhhhhccccccceeeeeecceeEEEEEEEecCcCCCCcceE
Q 024088          191 RHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKLVSLQHGTFDTKGGEF  255 (272)
Q Consensus       191 RhY~y~i~~~~~~~~~~~~~~~~d~~~~~~~~~~i~v~L~EIGPR~tL~L~kI~~G~f~g~~~~~  255 (272)
                      |.|  .|......                 +.+.  |+|.||||||+|.+++|.+|+|+|.+.|-
T Consensus       189 R~Y--eI~re~ed-----------------~~~d--v~L~EIGPRfVmtvi~iLEgsFgGp~iYk  232 (283)
T COG5154         189 RCY--EIGRENED-----------------KSKD--VKLEEIGPRFVMTVIKILEGSFGGPAIYK  232 (283)
T ss_pred             EEE--eecccccc-----------------cccc--ceeeeeccHHHHHHHHHHHhccCCceeee
Confidence            999  77421111                 0112  59999999999999999999999998764

>COG2136 IMP4 Predicted exosome subunit/U3 small nucleolar ribonucleoprotein (snoRNP) component, contains IMP4 domain [Translation, ribosomal structure and biogenesis / RNA processing and modification]

Probab=100.00  E-value=3.1e-33  Score=240.91  Aligned_cols=181  Identities=37%  Similarity=0.581  Sum_probs=170.2

Q ss_pred             CeEEEEcCCCCCCcHHHHHHHHhhcCCCceecccCCccHHHHHHHhHhCCCCEEEEEEEcCCCCCeEEEEeC-CCCceEE
Q 024088           43 PKILITTCRFNSNRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGL-PDGPTAH  121 (272)
Q Consensus        43 pkiLIttSr~ps~~~r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~g~t~lii~~e~~~~p~~L~I~~l-P~GPT~~  121 (272)
                      ||+||||||+||.++++|++||..++||+.+..||+.++.++.+.|...|.++++|++|.+|+|..|.++++ |.||++.
T Consensus         2 ~~~liTTSRkPS~Rtr~Fak~L~~~lp~~~~~~rg~~~~~el~~~a~~~g~~~l~iv~E~rGnP~~L~f~d~~~~~~~~~   81 (191)
T COG2136           2 PKMLLTTSRKPSRRTRSFAKDLSRVLPNAYFLRRGKKSIIELSEEAIARGATDLLIVGERRGNPARLTFYDLEPEGLTFS   81 (191)
T ss_pred             CcEEEEecCCccHHHHHHHHHHHHhCCcceEEecCccchhHHHHHHHhcCCceEEEEEEecCCCcEEEEEEecCCCceEE
Confidence            899999999999999999999999999999999999999999999999999999999999999999999999 9999999


Q ss_pred             EEEcceeehhhhccCCC-CCCCCcEEEccCCCCchh-hHHHHHHHhh----CCCCCCCCCCeEEEEEecCCeEEEEeeee
Q 024088          122 FKLSKLVLRKDIKNHGN-PTGHIPELVLNNFATRLG-HRVGRLIQSL----FPQSPEFRGRRVVTFHNQRDFIFFRHHRY  195 (272)
Q Consensus       122 F~I~n~~l~~di~~~~~-~~~~~P~LilnnF~t~~g-~~i~~~l~~l----Fp~~p~~~~rRVv~f~~~~d~I~fRhY~y  195 (272)
                      |+|+|+.+.+++...+. ...+.|++|++||.+..+ ..++++|+.+    |+++++.....|+.++++.+++.||+|.|
T Consensus        82 f~l~~v~l~re~~~~~~~~~~~~~~~I~~~~~~~~g~~~~~~~~~~~~~~~f~~~~~~~~~~v~~~~~~~~f~~~~~~~~  161 (191)
T COG2136          82 FKLSGVKLRREIPVLGPKSRLHGPELIFNNFTTLLGFLKVAEAFSELLLVKFVPNPAWEHELVATGANKGDFKSLRRHRR  161 (191)
T ss_pred             EEEecceEEEeccccCCcccCCCCceeeecccccccchhhHHHHHhhcccccccCcccceeeeeeccccceEEEEEeeee
Confidence            99999999999999887 557899999999999888 7999999999    88877777899999999999999999999


Q ss_pred             EEeeccCCCCCCCCCcccchhhhhccccccceeeeeecceeEEEEEEEecCcC
Q 024088          196 IFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKLVSLQHGTF  248 (272)
Q Consensus       196 ~i~~~~~~~~~~~~~~~~d~~~~~~~~~~i~v~L~EIGPR~tL~L~kI~~G~f  248 (272)
                      .+..  .+                       +.++|+||||+|+|..+++|..
T Consensus       162 ~~~~--~~-----------------------~~~~~vgp~~~~r~~~~~~g~~  189 (191)
T COG2136         162 VFEE--DG-----------------------IGLEEVGPRLTLRLWRMEDGRG  189 (191)
T ss_pred             Eeee--ee-----------------------eeEEEeCceeeeehhhhhhccc
Confidence            8865  22                       4899999999999999999943

>PRK03972 ribosomal biogenesis protein; Validated

Probab=99.95  E-value=2.7e-26  Score=199.10  Aligned_cols=125  Identities=20%  Similarity=0.343  Sum_probs=113.9

Q ss_pred             EEEEcCCCCCCcHHHHHHHHhhcCCCceecccCCccHHHHHHHhHhCCCCEEEEEEEcCCCCCeEEEEeCCC---CceEE
Q 024088           45 ILITTCRFNSNRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPD---GPTAH  121 (272)
Q Consensus        45 iLIttSr~ps~~~r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~g~t~lii~~e~~~~p~~L~I~~lP~---GPT~~  121 (272)
                      +|||||++||+++++|++||..+|||+.+++||+.+++|+++.|..+|+|++|+++|++|+|+.|.|+|||.   |||++
T Consensus         2 iLITTSr~PS~rtr~F~keL~~v~Pns~~i~RGk~~lkel~~~A~~~g~TdLIVV~E~rg~P~~L~i~hLP~gP~GPTa~   81 (208)
T PRK03972          2 MLITTSHRPTRRTRSFGHDLERVFPNSLYLTRGKKTIQDLLMEAYDRGYERLLIINVWKGNPLKMTFIKVGPEDWGYLGY   81 (208)
T ss_pred             EEEECCCCccHHHHHHHHHHHHhCCCCEEEecCCccHHHHHHHHHHCCCCeEEEEecCCCcCCeEEEEcCCCCCCCceEE
Confidence            799999999999999999999999999999999999999999999999999999999999999999999985   55999


Q ss_pred             EEEcceeehhhh--ccCCCCCCCCcEEEccCCCCchhh-HHHHHHHhhCCC
Q 024088          122 FKLSKLVLRKDI--KNHGNPTGHIPELVLNNFATRLGH-RVGRLIQSLFPQ  169 (272)
Q Consensus       122 F~I~n~~l~~di--~~~~~~~~~~P~LilnnF~t~~g~-~i~~~l~~lFp~  169 (272)
                      |+|+|+.+.+||  ++.+..+.+.|++|.++|.+..+. ..+..+.+.+.-
T Consensus        82 FkLsnV~l~~ei~~~~~~~~s~~~p~iItts~kt~~g~~~~Ak~lA~eLgi  132 (208)
T PRK03972         82 LYLHGIKLQREMGFRNLRPIREDMPLVITTAKRVGLDHMAFAQVFAELTGG  132 (208)
T ss_pred             EEEccEEEHHHcccCCCCCccccccEEEEcCCCCCHHHHHHHHHHHHHhCC
Confidence            999999999999  457778889999999999998865 555555555554

>PRK00933 ribosomal biogenesis protein; Validated

Probab=99.26  E-value=1.1e-10  Score=98.92  Aligned_cols=114  Identities=20%  Similarity=0.398  Sum_probs=85.9

Q ss_pred             EEEEcCCCCCCcHHHHHHHHhhcCCCceecccCCccHHHHHHHhHhCCCCEEEEEEEcCCCCCeEEEEeCCCCceEEEEE
Q 024088           45 ILITTCRFNSNRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAHFKL  124 (272)
Q Consensus        45 iLIttSr~ps~~~r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~g~t~lii~~e~~~~p~~L~I~~lP~GPT~~F~I  124 (272)
                      ++||||++||.++++|+++|...+ |+.+.+|++.+++++++.|..   .++++++|.+++|+.|.|+.+-..+.+.+.+
T Consensus         1 mIITTSrkPs~~t~~fAkeLa~~l-n~~yv~Rgk~Sl~eL~~~~~~---~~llVV~E~kg~P~~L~iyd~~~~~~~~~~~   76 (165)
T PRK00933          1 MIITTSRKPSQRTRSLVKDLARFL-NCKYVNRGKMSLQELLEECEA---RYLLIIGEYKGNPGALKFYDVEGNKLLSYRL   76 (165)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHh-CCEEEccCCccHHHHHHHhcc---CcEEEEECCCCCCceEEEEECCCCEEEEEEE
Confidence            489999999999999999999999 999999999999999877653   5999999999999999999998778777655


Q ss_pred             cceeehhhhccCCCCCCCCcEEEccCCCCchhhHHHHHHHhhC
Q 024088          125 SKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQSLF  167 (272)
Q Consensus       125 ~n~~l~~di~~~~~~~~~~P~LilnnF~t~~g~~i~~~l~~lF  167 (272)
                       ++.+..+... .......|.  .++++. .+..++++|....
T Consensus        77 -~v~~~~~~~~-~~~~~~~p~--~~~~~~-~~~~~~e~f~~~l  114 (165)
T PRK00933         77 -SVKLQREISG-PVFKNRRPI--KSAFDV-GGDELAELFDYFL  114 (165)
T ss_pred             -EeeeecccCc-ceeecCCCc--ccchhh-HHHHHHHHHHHHH
Confidence             4666665532 122234443  333332 1455666665544

>KOG3031 consensus Protein required for biogenesis of the ribosomal 60S subunit [Translation, ribosomal structure and biogenesis]

Probab=98.95  E-value=4.9e-09  Score=94.17  Aligned_cols=174  Identities=16%  Similarity=0.223  Sum_probs=130.9

Q ss_pred             CCCCcHHHHHHHHhhcC-CCceecccCCcc-----HHHHHHHhHhCCCCEEEEEEEcCCCCCeEEEEeCCCCce---EEE
Q 024088           52 FNSNRGPAFISELLSVI-PNSHYYKRGTYD-----LKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPT---AHF  122 (272)
Q Consensus        52 ~ps~~~r~f~kdL~~l~-Pns~~~~R~k~~-----lkdl~~~a~~~g~t~lii~~e~~~~p~~L~I~~lP~GPT---~~F  122 (272)
                      ..+..+.+-|.||-.+= |......|+++.     -.-+......+.|+=+++-+.+++.|.+|.|.+.=++--   +-+
T Consensus        37 ~~~~tl~~vm~dl~alKKp~~i~~~rkN~i~pFEd~ssleffseK~D~slfv~gs~sKKrp~nLv~gR~fd~~vlDMiEl  116 (307)
T KOG3031|consen   37 KTNKTLLDVMKDLYALKKPLEIRYNRKNNIHPFEDPSSLEFFSEKNDCSLFVLGSHSKKRPNNLVIGRTFDYEVLDMIEL  116 (307)
T ss_pred             hhchHHHHHHHHHHHhccCceeeeccCCCcccCCCCchHHHHhhhhhhhhhhhccccccCCCceEEEEecCchhhHHHHH
Confidence            44467788899997774 988888876421     334566778888998888888999999999988876643   578


Q ss_pred             EEcceeehhhhccCCCCCCCCcEEEccCC--C-CchhhHHHHHHHhhCCC-CCC----CCCCeEEEEEecCCe-EEEEee
Q 024088          123 KLSKLVLRKDIKNHGNPTGHIPELVLNNF--A-TRLGHRVGRLIQSLFPQ-SPE----FRGRRVVTFHNQRDF-IFFRHH  193 (272)
Q Consensus       123 ~I~n~~l~~di~~~~~~~~~~P~LilnnF--~-t~~g~~i~~~l~~lFp~-~p~----~~~rRVv~f~~~~d~-I~fRhY  193 (272)
                      .|.||...+|.....-..+..|.|+|.|+  . ++..++++.+|--.|-- .++    ...++|+.|...++. |+||||
T Consensus       117 gI~~ykslsdF~~~k~~~gtKP~l~f~G~~f~~~~~~krlknL~vDfFrge~vd~v~l~Gl~~v~vfta~~~~~v~~r~Y  196 (307)
T KOG3031|consen  117 GIENYKSLSDFKAAKITEGTKPMLIFQGAVFDQHPEYKRLKNLFVDFFRGEKVDKVRLAGLEYVIVFTATEETNVLFRVY  196 (307)
T ss_pred             hhhhhhhhhhhhccCCCCCCCceEEEecchhccChHHHHHHHHHHHHHcCCcccceeeccccEEEEEEeecCceeeeeee
Confidence            89999999998775533578999999974  4 35667999999999975 222    246899999976555 999999


Q ss_pred             eeEEeeccCCCCCCCCCcccchhhhhccccccceeeeeecceeEEEEEEEec
Q 024088          194 RYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKLVSLQH  245 (272)
Q Consensus       194 ~y~i~~~~~~~~~~~~~~~~d~~~~~~~~~~i~v~L~EIGPR~tL~L~kI~~  245 (272)
                      +.........                    .-++.|.|+||++.|.+.+..-
T Consensus       197 ~lklkKs~~~--------------------~PRiELeE~GPsldf~irR~~~  228 (307)
T KOG3031|consen  197 RLKLKKSGTR--------------------TPRIELEEMGPSLDFEIRRTKL  228 (307)
T ss_pred             eeeeeeccCC--------------------CCceehhhcCCceeEEEEeccC
Confidence            6444322221                    1246999999999999998873

>COG5106 RPF2 Uncharacterized conserved protein [Function unknown]

Probab=97.27  E-value=0.00041  Score=61.71  Aligned_cols=183  Identities=18%  Similarity=0.218  Sum_probs=116.2

Q ss_pred             cHHHHHHHHhhc-CCCceecccCCcc-----HHHHHHHhHhCCCCEEEEEEEcCCCCCeEEEEeCCCC---ceEEEEEcc
Q 024088           56 RGPAFISELLSV-IPNSHYYKRGTYD-----LKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDG---PTAHFKLSK  126 (272)
Q Consensus        56 ~~r~f~kdL~~l-~Pns~~~~R~k~~-----lkdl~~~a~~~g~t~lii~~e~~~~p~~L~I~~lP~G---PT~~F~I~n  126 (272)
                      .+...+=|+..+ .|....+.|+.+-     ..-+--+++.+.|.-.+++...++.+.+|.+.+.=+=   -.+-|.|.+
T Consensus        41 ~lldvi~d~~alkkp~~i~f~rkn~ihpfEd~SplEffseknd~~l~vl~ts~kKr~hnlt~~R~Fny~~~DMiEl~i~~  120 (316)
T COG5106          41 TLLDVICDTEALKKPKEIGFIRKNTIHPFEDTSPLEFFSEKNDKKLSVLFTSVKKRRHNLTIGRAFNYELIDMIELKINR  120 (316)
T ss_pred             hhhhhhcchhhhccchhhccccCCcccccccCCHHHHHHHhhhhhhhhhhhhccccccceeEEeecchHHHHHHHHhhhh
Confidence            334444455444 2666666665321     1113345667778888888888888888988765432   125677888


Q ss_pred             eeehhhhccCCCCCCCCcEEEcc--CCCC-chhhHHHHHHHhhCCCCCCC-----CCCeEEEEEecC---C-----eEEE
Q 024088          127 LVLRKDIKNHGNPTGHIPELVLN--NFAT-RLGHRVGRLIQSLFPQSPEF-----RGRRVVTFHNQR---D-----FIFF  190 (272)
Q Consensus       127 ~~l~~di~~~~~~~~~~P~Liln--nF~t-~~g~~i~~~l~~lFp~~p~~-----~~rRVv~f~~~~---d-----~I~f  190 (272)
                      |....|....+-..+-.|.++|.  +|++ +..+.|+.+|-..|.-.+..     .-..|++...+.   |     .+.|
T Consensus       121 yksvsdF~~~~~~~g~Kpmv~fQg~~fd~hp~yr~iksLflDFFrges~~~ldsagls~Vi~~t~~g~~~d~~plp~v~f  200 (316)
T COG5106         121 YKSVSDFECAGPELGMKPMVVFQGINFDAHPTYRRIKSLFLDFFRGESSKVLDSAGLSWVIARTEEGYVLDTYPLPLVVF  200 (316)
T ss_pred             hhehhhhhccCCccCCceEEEEeccccccchHHHHHHHHHHHHHcCCchhhhhhcceeEEEEEecchhhhccccccceee
Confidence            99999988777667788999997  4775 66789999998888763321     235677776432   2     3578


Q ss_pred             EeeeeEEeeccCCCCCCCCCcccchhhhhccccccceeeeeecceeEEEEEEEecCcCCCCcceEEEEeCC
Q 024088          191 RHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKLVSLQHGTFDTKGGEFEWVHKP  261 (272)
Q Consensus       191 RhY~y~i~~~~~~~~~~~~~~~~d~~~~~~~~~~i~v~L~EIGPR~tL~L~kI~~G~f~g~~~~~~~v~k~  261 (272)
                      |-|....-....     +               --++.|.|+|||+.+++.++.  .|+. .+|-+-..||
T Consensus       201 RVyk~k~~kt~~-----~---------------lpr~elee~GPrldf~i~R~~--~~s~-d~~~ealkkP  248 (316)
T COG5106         201 RVYKTKLLKTKT-----N---------------LPRLELEECGPRLDFEIVRSY--HCSD-DLYKEALKKP  248 (316)
T ss_pred             eeeecccccccC-----C---------------CCceehhhcccceeeEEEeec--CCCh-HHHHHHhcCc
Confidence            988321111111     1               113589999999999999998  4443 2444444444

>PRK03972 ribosomal biogenesis protein; Validated

Probab=94.24  E-value=0.3  Score=42.99  Aligned_cols=76  Identities=24%  Similarity=0.293  Sum_probs=57.1

Q ss_pred             EEEEcCCCCCCcHHHHHHHHhhcCCCceecccCCccHHHHHHHhHhCCCCEEEEEEEcCCCCCeEEEEeC------CCCc
Q 024088           45 ILITTCRFNSNRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGL------PDGP  118 (272)
Q Consensus        45 iLIttSr~ps~~~r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~g~t~lii~~e~~~~p~~L~I~~l------P~GP  118 (272)
                      .+|||+.+++......++.+...+ +..+.+|++.++.++.   ...+...++|+..+-. ...+.++++      |-||
T Consensus       107 ~iItts~kt~~g~~~~Ak~lA~eL-gi~yV~R~k~Sl~~L~---~~~~~d~vLVV~~~~~-~~~~~~~~~~~~~~~~~~~  181 (208)
T PRK03972        107 LVITTAKRVGLDHMAFAQVFAELT-GGKFVPRGGKSLQDIA---DKYNTDVLGVIERHPR-GMAVNFYRLDVTKERPVGP  181 (208)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHh-CCceeCcCCcCHHHHH---hhhcCceEEEEecCCC-ceEEEEEEeccccccccCC
Confidence            589999999998888888887766 6778899999998776   4456788888855533 235666664      6789


Q ss_pred             eEEEEEc
Q 024088          119 TAHFKLS  125 (272)
Q Consensus       119 T~~F~I~  125 (272)
                      .+..++-
T Consensus       182 ~~~~~~~  188 (208)
T PRK03972        182 LIFVKIW  188 (208)
T ss_pred             cEEEEEE
Confidence            8887763

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	272
2cxh_A	217	Probable BRIX-domain ribosomal biogenesis protein;	2e-64
1w94_A	156	MIL, probable BRIX-domain ribosomal biogenesis pro	6e-10

>2cxh_A Probable BRIX-domain ribosomal biogenesis protein; 18S rRNA, IMP4, U3 snoRNP, ribosomal biogenesis binding, structural genomics, NPPSFA; 1.80A {Aeropyrum pernix} SCOP: c.51.1.2 Length = 217

 Score =  200 bits (509), Expect = 2e-64
 Identities = 32/190 (16%), Positives = 69/190 (36%), Gaps = 14/190 (7%)

Query: 20  DDDELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFISELLSVIPNSHYYKRGTY 79
               + AG+               +IL+TT R  S R  +F+ +L + IP +  + RG Y
Sbjct: 11  SSGLVPAGSHMLGGKGRPSGVGGYRILVTTSRRPSPRIRSFVKDLSATIPGAFRFTRGHY 70

Query: 80  DLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGP-----TAHFKLSKLVLRKDIK 134
            ++++   A  +    I+VV   R  P  ++ +   +GP        F +  + L ++ +
Sbjct: 71  SMEELAREAIIRGADRIVVVGERRGNP-GIIRVYAVEGPERPDNIVSFIVKGVSLSRERR 129

Query: 135 NHGNPTGHIPELVL-----NNFATRLGHRVGRLIQSLFPQSPE--FRGRRVVTFHNQRDF 187
             G P+    E+++     +  A            +         +    + +   +   
Sbjct: 130 -WGLPSLRGGEVLVARPLDSGVAVEFADAFVIAFHARLKPPEAAGYVEAVIESLDARTVA 188

Query: 188 IFFRHHRYIF 197
           + FR+     
Sbjct: 189 VTFRYGGAPV 198

>1w94_A MIL, probable BRIX-domain ribosomal biogenesis protein; archaeal IMP4-BRIX domain, IMP4 domain; 2.0A {Methanothermobacter thermautotrophicusorganism_taxid} SCOP: c.51.1.2 Length = 156

 Score = 55.8 bits (134), Expect = 6e-10
 Identities = 22/149 (14%), Positives = 44/149 (29%), Gaps = 15/149 (10%)

Query: 45  ILITTCRFNSNRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRR 104
           +L+TT R  S R  +F   L  ++    Y  RG   L+ ++  A+      + VV     
Sbjct: 2   MLLTTSRKPSQRTRSFSQRLSRIM-GWRYINRGKMSLRDVLIEARGP----VAVVSERHG 56

Query: 105 EPDALLIIGLPDGPTAHFKLSKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQ 164
            P  +  +    G    + L                    + V  +        +  L+ 
Sbjct: 57  NPARITFL-DERGGERGYILFNPSFEMKK------PELADKAVRVSSCPPGSEGLCNLMG 109

Query: 165 SLFPQSPEFRGRRVVTFHNQRDFIFFRHH 193
               +S     R   +     ++ +    
Sbjct: 110 LEVDESS---SRDAWSIRTDEEYAWVMEL 135

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	272
2cxh_A	217	Probable BRIX-domain ribosomal biogenesis protein;	100.0
1w94_A	156	MIL, probable BRIX-domain ribosomal biogenesis pro	99.83

>2cxh_A Probable BRIX-domain ribosomal biogenesis protein; 18S rRNA, IMP4, U3 snoRNP, ribosomal biogenesis binding, structural genomics, NPPSFA; 1.80A {Aeropyrum pernix} SCOP: c.51.1.2

Probab=100.00  E-value=4.7e-34  Score=249.94  Aligned_cols=147  Identities=16%  Similarity=0.177  Sum_probs=125.5

Q ss_pred             hhhhcCCCcchhhhhhcCCCCCeEEEEcCCCCCCcHHHHHHHHhhcCCCceecccCCccHHHHHHHhHhCCCCEEEEEEE
Q 024088           22 DELFAGNDADEFSSILKQGCAPKILITTCRFNSNRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHT  101 (272)
Q Consensus        22 ~~~~~~~~~de~~~~~~~~~~pkiLIttSr~ps~~~r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~g~t~lii~~e  101 (272)
                      +|..+.+..|+|.   +|...||+||||||+||.++++|++||+.+|||+.+.+|++.+|++|++.|..++|+++++|+|
T Consensus        16 ~~~~~~~g~~~~~---~~~~~pKvLITTSr~pS~r~r~fakeL~~~lPns~~i~Rgk~sLkeL~e~a~~~~~tdlivV~e   92 (217)
T 2cxh_A           16 PAGSHMLGGKGRP---SGVGGYRILVTTSRRPSPRIRSFVKDLSATIPGAFRFTRGHYSMEELAREAIIRGADRIVVVGE   92 (217)
T ss_dssp             --------------------CCEEEEEESSSCCHHHHHHHHHHHTTSTTEEECCCTTCCHHHHHHHHHHTTEEEEEEEEE
T ss_pred             ccccccccCcccc---cCCCCCeEEEEcCCCCCHHHHHHHHHHHHHCCCCEEeecCCcCHHHHHHHHHhCCCCEEEEEEe
Confidence            3455556668877   5778999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCeEEEEeCCCC---c-eEEEEEcceeehhhhccCCCCC-CCCcEEEccCCCCchhhHHHHHHHhhCCCCCCC
Q 024088          102 NRREPDALLIIGLPDG---P-TAHFKLSKLVLRKDIKNHGNPT-GHIPELVLNNFATRLGHRVGRLIQSLFPQSPEF  173 (272)
Q Consensus       102 ~~~~p~~L~I~~lP~G---P-T~~F~I~n~~l~~di~~~~~~~-~~~P~LilnnF~t~~g~~i~~~l~~lFp~~p~~  173 (272)
                      ++++|++|||+|+|.|   | |++|+|+|+.+++|++.++++. .++|+|+ +||++++|+++++||++|||. |..
T Consensus        93 ~rg~p~~L~~~hlP~G~~~P~Ta~F~I~nv~l~~ei~~~g~~~~~~rP~L~-~nF~t~~g~~i~~~f~~lFp~-P~~  167 (217)
T 2cxh_A           93 RRGNPGIIRVYAVEGPERPDNIVSFIVKGVSLSRERRWGLPSLRGGEVLVA-RPLDSGVAVEFADAFVIAFHA-RLK  167 (217)
T ss_dssp             ETTEEEEEEEEECCSSSCCEEEEEEEEEEEECHHHHTCCCCCCCSCCEEEE-EESSSSTHHHHHHHHHHHHCC-BSS
T ss_pred             cCCCCcEEEEEECCCCCCCCcEEEEEEeeEEehhhhccCCCccCCCCceEE-eeecCchHHHHHHHHHHHcCC-CCC
Confidence            9999999999999999   9 9999999999999999999874 6899999 999999999999999999998 653

>1w94_A MIL, probable BRIX-domain ribosomal biogenesis protein; archaeal IMP4-BRIX domain, IMP4 domain; 2.0A {Methanothermobacter thermautotrophicusorganism_taxid} SCOP: c.51.1.2

Probab=99.83  E-value=3.4e-20  Score=154.63  Aligned_cols=129  Identities=16%  Similarity=0.246  Sum_probs=105.9

Q ss_pred             eEEEEcCCCCCCcHHHHHHHHhhcCCCceecccCCccHHHHHHHhHhCCCCEEEEEEEcCCCCCeEEEEeCCCCceEEEE
Q 024088           44 KILITTCRFNSNRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAHFK  123 (272)
Q Consensus        44 kiLIttSr~ps~~~r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~g~t~lii~~e~~~~p~~L~I~~lP~GPT~~F~  123 (272)
                      |++||||++||.++++|+++|..++ |+.+.+|++.+++++++.|...    +++++|++|+|+.|.|+|+|.|||++|+
T Consensus         1 kilITTSr~Ps~~l~~fakeLa~~l-n~~~v~Rgk~sl~~L~~~~~~~----~iVV~e~rg~P~~l~i~hlp~gpt~~f~   75 (156)
T 1w94_A            1 HMLLTTSRKPSQRTRSFSQRLSRIM-GWRYINRGKMSLRDVLIEARGP----VAVVSERHGNPARITFLDERGGERGYIL   75 (156)
T ss_dssp             CCEEEECSSCCHHHHHHHHHHHHHH-TCEECCCTTCCHHHHHHHHSSC----EEEEEEETTEEEEEEEECTTSCEEEEEE
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHh-CCEEEeeCCcCHHHHHHhcCCC----EEEEEcCCCCCCeEEEEeCCCCCEEEEE
Confidence            6899999999999999999999999 9999999999999999888543    9999999999999999999999999999


Q ss_pred             EcceeehhhhccCCCCCCCCcEEEccCCCCchhhHHHHHHHhhCCCCCCCCCCeEEEEEecCCe
Q 024088          124 LSKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVTFHNQRDF  187 (272)
Q Consensus       124 I~n~~l~~di~~~~~~~~~~P~LilnnF~t~~g~~i~~~l~~lFp~~p~~~~rRVv~f~~~~d~  187 (272)
                      + |+.+.+|++...      |..|...+.++.+..+.++|.  ||. .+...++|+++..+++.
T Consensus        76 ~-nv~l~~~~~~~~------~~~v~~~~~~~~~~~l~~~~~--~~~-~~~~~~~~~~i~~~~~~  129 (156)
T 1w94_A           76 F-NPSFEMKKPELA------DKAVRVSSCPPGSEGLCNLMG--LEV-DESSSRDAWSIRTDEEY  129 (156)
T ss_dssp             E-EEEECSSCCCCS------SCCCEESCCCTTCHHHHHHHT--CEE-CCSCCTTEEEEECCSSS
T ss_pred             E-ceEEcccCcccC------CceEEEecCChhHHHHHHHHC--CCc-cCCCCceEEEEEeCCCc
Confidence            8 999999986322      333444456777777777766  344 23345689999754443

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	272
d2cxha1	180	c.51.1.2 (A:13-192) Probable ribosomal biogenesis	9e-56
d1w94a1	154	c.51.1.2 (A:1-154) Probable ribosomal biogenesis p	2e-43

>d2cxha1 c.51.1.2 (A:13-192) Probable ribosomal biogenesis protein {Archaeon Aeropyrum pernix [TaxId: 56636]} Length = 180

class: Alpha and beta proteins (a/b)
fold: Anticodon-binding domain-like
superfamily: Class II aaRS ABD-related
family: Brix domain
domain: Probable ribosomal biogenesis protein
species: Archaeon Aeropyrum pernix [TaxId: 56636]

 Score =  175 bits (445), Expect = 9e-56
 Identities = 30/164 (18%), Positives = 59/164 (35%), Gaps = 11/164 (6%)

Query: 44  KILITTCRFNSNRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNR 103
           +IL+TT R  S R  +F+ +L + IP +  + RG Y ++++   A  +    I+VV   R
Sbjct: 3   RILVTTSRRPSPRIRSFVKDLSATIPGAFRFTRGHYSMEELAREAIIRGADRIVVVGERR 62

Query: 104 REPDALLIIGLPDGP-----TAHFKLSKLVLRKDIK----NHGNPTGHIPELVLNNFATR 154
             P  ++ +   +GP        F +  + L ++ +    +       +   + +  A  
Sbjct: 63  GNPG-IIRVYAVEGPERPDNIVSFIVKGVSLSRERRWGLPSLRGGEVLVARPLDSGVAVE 121

Query: 155 LGHRVGRLIQSLFPQSPEFRGRRVVTFHNQRDFIFFRHHRYIFE 198
                     +     PE  G       +          RY   
Sbjct: 122 FADAFVIAFHARLKP-PEAAGYVEAVIESLDARTVAVTFRYGGA 164

>d1w94a1 c.51.1.2 (A:1-154) Probable ribosomal biogenesis protein {Methanobacterium thermoautotrophicum [TaxId: 145262]} Length = 154

class: Alpha and beta proteins (a/b)
fold: Anticodon-binding domain-like
superfamily: Class II aaRS ABD-related
family: Brix domain
domain: Probable ribosomal biogenesis protein
species: Methanobacterium thermoautotrophicum [TaxId: 145262]

 Score =  143 bits (362), Expect = 2e-43
 Identities = 23/150 (15%), Positives = 42/150 (28%), Gaps = 17/150 (11%)

Query: 45  ILITTCRFNSNRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRR 104
           +L+TT R  S R  +F   L  ++    Y  RG   L+ ++  A       + VV     
Sbjct: 1   MLLTTSRKPSQRTRSFSQRLSRIMGWR-YINRGKMSLRDVLIEA----RGPVAVVSERHG 55

Query: 105 EPDALLIIGLPDGPTAHFKLSKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQ 164
            P  +  +    G    + L                   PEL                + 
Sbjct: 56  NPARITFL-DERGGERGYILFNPSFEMKK----------PELADKAVRVSSCPPGSEGLC 104

Query: 165 SLFPQSPEFRGRR-VVTFHNQRDFIFFRHH 193
           +L     +    R   +     ++ +    
Sbjct: 105 NLMGLEVDESSSRDAWSIRTDEEYAWVMEL 134

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	272
d2cxha1	180	Probable ribosomal biogenesis protein {Archaeon Ae	100.0
d1w94a1	154	Probable ribosomal biogenesis protein {Methanobact	99.98

>d2cxha1 c.51.1.2 (A:13-192) Probable ribosomal biogenesis protein {Archaeon Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: Anticodon-binding domain-like
superfamily: Class II aaRS ABD-related
family: Brix domain
domain: Probable ribosomal biogenesis protein
species: Archaeon Aeropyrum pernix [TaxId: 56636]

Probab=100.00  E-value=1.1e-41  Score=289.06  Aligned_cols=151  Identities=20%  Similarity=0.294  Sum_probs=143.2

Q ss_pred             CeEEEEcCCCCCCcHHHHHHHHhhcCCCceecccCCccHHHHHHHhHhCCCCEEEEEEEcCCCCCeEEEEeCCCCc----
Q 024088           43 PKILITTCRFNSNRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGP----  118 (272)
Q Consensus        43 pkiLIttSr~ps~~~r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~g~t~lii~~e~~~~p~~L~I~~lP~GP----  118 (272)
                      -|||||||++||+++++||+||+.+||||.+++|++++|+|++++|..+||||+|+|+|++++| +|+++|+|.||    
T Consensus         2 ~kvLITTSr~ps~~~r~f~kdL~~v~Pns~~~~R~k~~lk~i~~~a~~~~~t~liiv~e~~~~p-~l~i~~lP~GP~~~~   80 (180)
T d2cxha1           2 YRILVTTSRRPSPRIRSFVKDLSATIPGAFRFTRGHYSMEELAREAIIRGADRIVVVGERRGNP-GIIRVYAVEGPERPD   80 (180)
T ss_dssp             CEEEEEESSSCCHHHHHHHHHHHTTSTTEEECCCTTCCHHHHHHHHHHTTEEEEEEEEEETTEE-EEEEEEECCSSSCCE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHhCCCCEEeecCCCcHHHHHHHHHHCCCCeEEEEEccCCCC-cEEEEECCCCCCCcc
Confidence            3899999999999999999999999999999999999999999999999999999999999988 69999999999    


Q ss_pred             -eEEEEEcceeehhhhccC----CCCCCCCcEEEccCCCCchhhHHHHHHHhhCCCCCCCCCCeEEEEEecCCeEEEEee
Q 024088          119 -TAHFKLSKLVLRKDIKNH----GNPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVTFHNQRDFIFFRHH  193 (272)
Q Consensus       119 -T~~F~I~n~~l~~di~~~----~~~~~~~P~LilnnF~t~~g~~i~~~l~~lFp~~p~~~~rRVv~f~~~~d~I~fRhY  193 (272)
                       |++|+|+|+.+++|++..    +..+.+.|++|+|||++++|++++++|+++||+ |+..++||++|++++|+||+|+|
T Consensus        81 ~t~~F~l~nv~l~~e~~~~~~~~~~~t~~~p~lilnnf~t~Lg~~~~~~f~~lf~~-p~~~~~~vvt~~n~~d~if~~~~  159 (180)
T d2cxha1          81 NIVSFIVKGVSLSRERRWGLPSLRGGEVLVARPLDSGVAVEFADAFVIAFHARLKP-PEAAGYVEAVIESLDARTVAVTF  159 (180)
T ss_dssp             EEEEEEEEEEECHHHHTCCCCCCCSCCEEEEEESSSSTHHHHHHHHHHHHCCBSSC-CSSSCEEEEEEEEEETTEEEEEE
T ss_pred             ceEEEEEEEEEEehhhccccCCCCCCccccchhHhcccchHHHHHHHHHHHhhCCC-chhcCcEEEEEEecCCeEEEEEE
Confidence             999999999999999753    445668999999999999999999999999998 88899999999999999999999


Q ss_pred             ee
Q 024088          194 RY  195 (272)
Q Consensus       194 ~y  195 (272)
                      +|
T Consensus       160 ~~  161 (180)
T d2cxha1         160 RY  161 (180)
T ss_dssp             EC
T ss_pred             ec
Confidence            76

>d1w94a1 c.51.1.2 (A:1-154) Probable ribosomal biogenesis protein {Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: Anticodon-binding domain-like
superfamily: Class II aaRS ABD-related
family: Brix domain
domain: Probable ribosomal biogenesis protein
species: Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=99.98  E-value=3.3e-33  Score=229.69  Aligned_cols=133  Identities=17%  Similarity=0.208  Sum_probs=125.4

Q ss_pred             EEEEcCCCCCCcHHHHHHHHhhcCCCceecccCCccHHHHHHHhHhCCCCEEEEEEEcCCCCCeEEEEeCCCCceEEEEE
Q 024088           45 ILITTCRFNSNRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAHFKL  124 (272)
Q Consensus        45 iLIttSr~ps~~~r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~g~t~lii~~e~~~~p~~L~I~~lP~GPT~~F~I  124 (272)
                      +|||||++||+++++||+||..+|||+ +++||+..++|+++.|    +++++|++|++|+|+.|.| |+|.|||++|++
T Consensus         1 vLITTSr~PS~rtr~F~keL~~i~P~~-~~~Rgk~~lkelv~~~----~tdlivv~E~rg~P~~l~i-h~p~gpt~~f~l   74 (154)
T d1w94a1           1 MLLTTSRKPSQRTRSFSQRLSRIMGWR-YINRGKMSLRDVLIEA----RGPVAVVSERHGNPARITF-LDERGGERGYIL   74 (154)
T ss_dssp             CEEEECSSCCHHHHHHHHHHHHHHTCE-ECCCTTCCHHHHHHHH----SSCEEEEEEETTEEEEEEE-ECTTSCEEEEEE
T ss_pred             CEEECCCCccHHHHHHHHHHHHhCCCe-EEEcCCCcHHHHHHhC----CCcEEEEECCCCCCceEEE-EeCCCCcEEEEE
Confidence            689999999999999999999999985 8999999999999877    6999999999999999988 999999999999


Q ss_pred             cceeehhhhccCCCCCCCCcEEEccCCCCchhhHHHHHHHhhCCCCCCCCCCe-EEEEEecCCeEEEEee
Q 024088          125 SKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRR-VVTFHNQRDFIFFRHH  193 (272)
Q Consensus       125 ~n~~l~~di~~~~~~~~~~P~LilnnF~t~~g~~i~~~l~~lFp~~p~~~~rR-Vv~f~~~~d~I~fRhY  193 (272)
                      .|+.+.+|          +|++|+|||++.+|..++++|+++||..++.+++| |++|++++|+|+++||
T Consensus        75 ~~v~l~~e----------~p~li~~~f~t~lg~~v~~~L~~lf~~~~~~~~~~~~itf~n~~d~i~~~~~  134 (154)
T d1w94a1          75 FNPSFEMK----------KPELADKAVRVSSCPPGSEGLCNLMGLEVDESSSRDAWSIRTDEEYAWVMEL  134 (154)
T ss_dssp             EEEEECSS----------CCCCSSCCCEESCCCTTCHHHHHHHTCEECCSCCTTEEEEECCSSSSEEEEE
T ss_pred             eeEEcccc----------CCcCcccccccccchhHHHHHHHHcCCChhhcceeeEEEEecCCCEEEEEEE
Confidence            99998765          69999999999999999999999999977777766 9999999999999998